Query 027464
Match_columns 223
No_of_seqs 79 out of 81
Neff 2.8
Searched_HMMs 46136
Date Fri Mar 29 10:18:14 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027464.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027464hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF02341 RcbX: RbcX protein; 100.0 1.4E-40 3E-45 264.4 8.7 85 110-197 8-92 (111)
2 cd00131 PAX Paired Box domain 83.2 3.6 7.9E-05 32.9 5.7 77 98-174 5-99 (128)
3 smart00351 PAX Paired Box doma 81.2 4.6 9.9E-05 32.0 5.6 76 99-174 6-99 (125)
4 PF12112 DUF3579: Protein of u 70.8 1.5 3.2E-05 34.8 0.2 24 130-153 63-86 (92)
5 PRK15337 type III secretion sy 63.6 6.8 0.00015 40.3 3.2 49 115-166 493-541 (686)
6 smart00674 CENPB Putative DNA- 60.2 34 0.00073 23.4 5.3 28 126-153 35-63 (66)
7 TIGR01987 HI0074 nucleotidyltr 57.4 28 0.0006 28.3 5.2 64 105-174 34-104 (123)
8 PRK08335 translation initiatio 51.2 47 0.001 30.4 6.2 61 123-192 46-108 (275)
9 PF03115 Astro_capsid: Astrovi 51.0 5.1 0.00011 41.7 0.0 53 1-76 147-199 (787)
10 PF14677 FANCI_S3: FANCI solen 49.7 21 0.00046 31.4 3.6 35 128-163 174-215 (219)
11 PRK12720 secretion system appa 49.5 29 0.00063 35.8 5.0 50 114-166 478-527 (675)
12 cd02518 GT2_SpsF SpsF is a gly 46.2 23 0.0005 29.4 3.2 30 122-151 195-225 (233)
13 smart00302 GED Dynamin GTPase 45.4 30 0.00064 26.2 3.4 14 159-172 58-71 (92)
14 TIGR01399 hrcV type III secret 43.0 43 0.00092 34.7 5.1 50 114-166 482-531 (677)
15 PF14842 FliG_N: FliG N-termin 39.4 1.4E+02 0.003 23.1 6.4 65 110-174 20-95 (108)
16 cd08330 CARD_ASC_NALP1 Caspase 38.7 66 0.0014 24.1 4.3 52 120-173 30-81 (82)
17 PRK06012 flhA flagellar biosyn 37.7 61 0.0013 33.5 5.2 50 114-166 498-548 (697)
18 PF12309 KBP_C: KIF-1 binding 32.8 42 0.00091 31.7 3.0 40 138-197 330-369 (371)
19 PF08780 NTase_sub_bind: Nucle 32.8 59 0.0013 26.0 3.4 31 143-173 66-103 (124)
20 PF09280 XPC-binding: XPC-bind 32.1 48 0.001 24.0 2.6 32 124-163 23-54 (59)
21 PF14278 TetR_C_8: Transcripti 31.0 7.9 0.00017 26.0 -1.5 55 154-214 13-69 (77)
22 PRK10356 hypothetical protein; 31.0 1E+02 0.0023 28.7 5.2 55 103-162 200-259 (274)
23 PRK07194 fliG flagellar motor 30.9 81 0.0018 29.1 4.5 99 110-210 22-139 (334)
24 TIGR01398 FlhA flagellar biosy 28.7 95 0.0021 32.2 4.9 50 114-166 482-532 (678)
25 COG2441 Predicted butyrate kin 27.5 49 0.0011 32.0 2.5 66 135-214 204-283 (374)
26 PF10025 DUF2267: Uncharacteri 27.3 2.5E+02 0.0055 22.0 6.2 77 118-196 18-122 (125)
27 cd07313 terB_like_2 tellurium 26.4 2.6E+02 0.0057 20.4 5.8 66 123-189 22-90 (104)
28 PF00771 FHIPEP: FHIPEP family 25.5 56 0.0012 33.3 2.7 52 113-166 467-518 (658)
29 PF12234 Rav1p_C: RAVE protein 24.5 1.2E+02 0.0027 31.1 4.8 69 108-177 480-553 (631)
30 PF01253 SUI1: Translation ini 24.0 98 0.0021 22.9 3.1 30 90-120 15-44 (83)
31 cd08321 Pyrin_ASC-like Pyrin D 23.7 97 0.0021 23.4 3.1 30 108-137 43-73 (82)
32 PF11381 DUF3185: Protein of u 22.7 1.1E+02 0.0024 22.5 3.1 31 114-144 11-45 (59)
33 KOG2229 Protein required for a 22.3 1.2E+02 0.0026 31.3 4.2 57 111-171 183-250 (616)
34 cd04236 AAK_NAGS-Urea AAK_NAGS 22.3 45 0.00098 30.3 1.2 30 122-151 2-31 (271)
35 PRK05910 type III secretion sy 22.0 1.2E+02 0.0025 31.2 4.1 51 113-166 389-440 (584)
36 PRK07920 lipid A biosynthesis 21.3 83 0.0018 27.8 2.6 25 124-148 255-282 (298)
37 PF06713 bPH_4: Bacterial PH d 21.2 63 0.0014 23.5 1.6 16 151-166 59-74 (74)
38 PRK08943 lipid A biosynthesis 20.9 1.5E+02 0.0033 26.5 4.2 26 124-149 277-305 (314)
39 PF10963 DUF2765: Protein of u 20.8 75 0.0016 24.8 2.0 31 144-174 36-66 (83)
40 TIGR00512 salvage_mtnA S-methy 20.7 3.3E+02 0.0072 25.7 6.5 65 124-193 72-142 (331)
41 TIGR00207 fliG flagellar motor 20.6 1.5E+02 0.0032 27.6 4.1 100 110-211 24-143 (338)
42 PF07878 DUF1662: Protein of u 20.4 39 0.00085 24.4 0.3 20 136-156 34-53 (55)
No 1
>PF02341 RcbX: RbcX protein; InterPro: IPR003435 The RbcX protein has been identified as having a possible chaperonin-like function []. The rbcX gene is juxtaposed to and cotranscribed with rbcL and rbcS encoding RubisCO in Anabaena sp. (strain CA / ATCC 33047). RbcX has been shown to possess a chaperonin-like function assisting correct folding of RubisCO in Escherichia coli expression studies and is needed for RubisCO to reach its maximal activity [].; PDB: 2PEM_B 2PEI_L 2PEK_A 2Z46_E 2Z44_A 2PEJ_F 2PEN_D 2PEQ_B 2Z45_A 3Q20_A ....
Probab=100.00 E-value=1.4e-40 Score=264.37 Aligned_cols=85 Identities=40% Similarity=0.718 Sum_probs=81.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccchhhhhhhhhhhhhhhhhhhhhhh
Q 027464 110 EDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVVSETFVLFLFLNIKRNASTEDVVC 189 (223)
Q Consensus 110 ~DtAk~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~RIM~ltVvRea~Aeev~e 189 (223)
+||||+|+||||||||||||+||+|||||+|.||+||+++|||||||+||++|++|+|+||+||| +| |+|||++++|
T Consensus 8 kdtak~L~~yfTy~Avr~Vl~QL~etnp~~~~wL~~F~~~~~~~DGd~fl~~L~~e~~~LA~RIM--~v-R~~la~~~~d 84 (111)
T PF02341_consen 8 KDTAKVLQSYFTYQAVRTVLAQLYETNPPAYIWLYNFLSRNPLQDGDAFLEALMRENQELALRIM--EV-REHLAEEVFD 84 (111)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHSHHHHHHHHHHHHHSTCSSHHHHHHHHHCC-HHHHHHHH--HH-HHHHHHHHGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhcCCCccHHHHHHHHHHHCHHHHHHHH--HH-HHHHHHHHHH
Confidence 69999999999999999999999999999999999999999999999999999999999999998 97 9999999999
Q ss_pred chhhhhhc
Q 027464 190 VFPLKLQN 197 (223)
Q Consensus 190 flPe~~~~ 197 (223)
|+|||+..
T Consensus 85 ~l~em~~~ 92 (111)
T PF02341_consen 85 FLPEMVRE 92 (111)
T ss_dssp GHHHHHHH
T ss_pred HhHHHHHH
Confidence 99999764
No 2
>cd00131 PAX Paired Box domain
Probab=83.18 E-value=3.6 Score=32.94 Aligned_cols=77 Identities=13% Similarity=0.041 Sum_probs=55.1
Q ss_pred eecCCCcccc----chHHHHHHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCC--------------HHHHH
Q 027464 98 VNEVGGQYED----SFEDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGD--------------GKHFI 159 (223)
Q Consensus 98 v~~~~G~yEd----~f~DtAk~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qD--------------Ge~FL 159 (223)
+|.+||+|.- +-+.=++++.-|-.=...+.+..++.=.-+..+.|+..|-.++.+.. -+.||
T Consensus 5 ~~~~~~~~~m~~~lS~d~R~rIv~~~~~G~s~~~iA~~~~Vs~~tV~r~i~r~~e~G~v~pk~~gg~rpr~~~~~~~~~i 84 (128)
T cd00131 5 VNQLGGVFVNGRPLPDSIRQRIVELAQSGIRPCDISRQLRVSHGCVSKILNRYYETGSIRPGAIGGSKPRVATPEVVKKI 84 (128)
T ss_pred ccCCCccccCCCcCCHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCCCCCCCCCCcCCHHHHHHH
Confidence 5678888843 22455666666655566777788888877899999999997755432 25778
Q ss_pred HHHhccchhhhhhhh
Q 027464 160 RILGKVVSETFVLFL 174 (223)
Q Consensus 160 ~~L~rE~qeLA~RIM 174 (223)
.++.+++|++-.+=|
T Consensus 85 ~~~v~~~p~~Tl~El 99 (128)
T cd00131 85 EIYKQENPGMFAWEI 99 (128)
T ss_pred HHHHHHCCCCCHHHH
Confidence 888899988766654
No 3
>smart00351 PAX Paired Box domain.
Probab=81.23 E-value=4.6 Score=32.02 Aligned_cols=76 Identities=13% Similarity=0.066 Sum_probs=49.3
Q ss_pred ecCCCccccc----hHHHHHHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCC----H----------HHHHH
Q 027464 99 NEVGGQYEDS----FEDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGD----G----------KHFIR 160 (223)
Q Consensus 99 ~~~~G~yEd~----f~DtAk~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qD----G----------e~FL~ 160 (223)
|.+||.|--+ -+.=++.+.-|-.=...+.+-.++.=.-+..|.|+..|-.++.+.. | +.||.
T Consensus 6 ~~~~~~~~~~~~~s~~~R~riv~~~~~G~s~~~iA~~~gvs~~tV~kwi~r~~~~G~~~pk~~gg~rp~~~~~~~~~~I~ 85 (125)
T smart00351 6 NQLGGVFVNGRPLPDEERQRIVELAQNGVRPCDISRQLCVSHGCVSKILGRYYETGSIRPGAIGGSKPKVATPKVVKKIA 85 (125)
T ss_pred ccCCCeecCCCCCCHHHHHHHHHHHHcCCCHHHHHHHHCcCHHHHHHHHHHHHHcCCcCCcCCCCCCCCccCHHHHHHHH
Confidence 4566655332 1233344444433335666677777777799999999987655544 3 67899
Q ss_pred HHhccchhhhhhhh
Q 027464 161 ILGKVVSETFVLFL 174 (223)
Q Consensus 161 ~L~rE~qeLA~RIM 174 (223)
++.+++|++-.+=|
T Consensus 86 ~~~~~~p~~t~~el 99 (125)
T smart00351 86 DYKQENPGIFAWEI 99 (125)
T ss_pred HHHHHCCCCCHHHH
Confidence 99999988766653
No 4
>PF12112 DUF3579: Protein of unknown function (DUF3579); InterPro: IPR021969 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 98 to 126 amino acids in length. This protein has a conserved FRP sequence motif. ; PDB: 2L9D_A.
Probab=70.80 E-value=1.5 Score=34.82 Aligned_cols=24 Identities=21% Similarity=0.474 Sum_probs=21.0
Q ss_pred HHhhcCChhhHHHHHHhHhcCCCC
Q 027464 130 HQLYEMNPTQYMWFYNFVATNKPG 153 (223)
Q Consensus 130 aQL~EtNP~~y~WL~nF~s~n~~q 153 (223)
.+|++.||.+|..++||...|.+|
T Consensus 63 ~~L~~~~P~af~fvm~FA~dN~L~ 86 (92)
T PF12112_consen 63 ERLRDIEPMAFDFVMNFAKDNDLQ 86 (92)
T ss_dssp THHHHH-HHHHHHHHHHHHHHTEE
T ss_pred cHhhhcChHHHHHHHHHHHHCCCe
Confidence 589999999999999999999875
No 5
>PRK15337 type III secretion system protein InvA; Provisional
Probab=63.57 E-value=6.8 Score=40.29 Aligned_cols=49 Identities=16% Similarity=0.198 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccc
Q 027464 115 QIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 115 ~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
....+|++|-++..+++|++.+|..-..+.+-++ +++=-+=|+.|++|+
T Consensus 493 ~a~ellg~qev~~Lld~l~~~~p~Lv~elp~~l~---l~~i~~VLq~LL~E~ 541 (686)
T PRK15337 493 NINEFFGIQETKHLLDQLEKKYPDLLKEVYRHAT---VQRISEVLQRLLSER 541 (686)
T ss_pred HHHHHcCHHHHHHHHHHHHHHCHHHHHHHhccCC---HHHHHHHHHHHHhcC
Confidence 3678999999999999999999988888744443 344445788888885
No 6
>smart00674 CENPB Putative DNA-binding domain in centromere protein B, mouse jerky and transposases.
Probab=60.20 E-value=34 Score=23.42 Aligned_cols=28 Identities=18% Similarity=0.198 Sum_probs=19.4
Q ss_pred HHHHHHhh-cCChhhHHHHHHhHhcCCCC
Q 027464 126 RTVLHQLY-EMNPTQYMWFYNFVATNKPG 153 (223)
Q Consensus 126 RtVLaQL~-EtNP~~y~WL~nF~s~n~~q 153 (223)
+.++.++. +.-.....||++|..+|++.
T Consensus 35 ~~i~~~~~~~~f~~s~~Wl~rF~~Rh~~~ 63 (66)
T smart00674 35 LEILQRLGLENFKASNGWLTRFKKRHNIV 63 (66)
T ss_pred HHHHHHcCCCCCCCCHHHHHHHHHHcCCc
Confidence 34455554 33347889999999999874
No 7
>TIGR01987 HI0074 nucleotidyltransferase substrate binding protein, HI0074 family. The member of this family from Haemophilus influenzae, HI0074, has been shown by crystal structure to resemble nucleotidyltransferase substrate binding proteins. It forms a complex with HI0073, encoded by the adjacent gene and containing a nucleotidyltransferase nucleotide binding domain (pfam01909).
Probab=57.41 E-value=28 Score=28.26 Aligned_cols=64 Identities=16% Similarity=0.171 Sum_probs=40.5
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccc-------hhhhhhhh
Q 027464 105 YEDSFEDVKKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVV-------SETFVLFL 174 (223)
Q Consensus 105 yEd~f~DtAk~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~-------qeLA~RIM 174 (223)
+|=+|+=+=|+|..||.|+.+. -.+.++|.-. +..--..+=|.||+.|++-|-..| .+.|..|.
T Consensus 34 FE~t~ELaWK~lK~~L~~~G~~-----~~~~~spr~~-ir~A~~~glI~d~~~W~~ml~~RN~tsHtYde~~a~~i~ 104 (123)
T TIGR01987 34 FEFTFELAWKLMKRYLAQEGIN-----DIGAYSPKDV-LKEAFRAGLIGDESLWIAMLDDRNITSHTYDQEKAREIY 104 (123)
T ss_pred hhhHHHHHHHHHHHHHHHcCCc-----ccccCCHHHH-HHHHHHcCCcCCHHHHHHHHHHhCcccccCCHHHHHHHH
Confidence 4545555557777777666531 1123444433 566666688899999999887765 56777774
No 8
>PRK08335 translation initiation factor IF-2B subunit alpha; Validated
Probab=51.17 E-value=47 Score=30.43 Aligned_cols=61 Identities=13% Similarity=0.107 Sum_probs=47.3
Q ss_pred HHHHHHHHHhhcCChhhHH--HHHHhHhcCCCCCHHHHHHHHhccchhhhhhhhhhhhhhhhhhhhhhhchh
Q 027464 123 KAVRTVLHQLYEMNPTQYM--WFYNFVATNKPGDGKHFIRILGKVVSETFVLFLFLNIKRNASTEDVVCVFP 192 (223)
Q Consensus 123 qAVRtVLaQL~EtNP~~y~--WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~RIM~ltVvRea~Aeev~eflP 192 (223)
.+++.+..+|.++.|++.. |..++. +.+...+.|.++-.++..++- +. ++.+++.-.++++
T Consensus 46 ~~l~~~~~~L~~aRPTavnL~~a~~~~------~~~~~~~~~~~~a~~~~~~~~--~~-~~~I~~~a~~~I~ 108 (275)
T PRK08335 46 NALKELREEIPEVNPTMASLYNLARFI------PITNNPELVKSRAEEFLRLME--EA-KREIGNIGSELID 108 (275)
T ss_pred HHHHHHHHHHHHcCCcHHhHHHHHHHh------chhHHHHHHHHHHHHHHHHHH--HH-HHHHHHHHHHHcC
Confidence 6788889999999998775 777776 345566667777788888884 75 8888888888877
No 9
>PF03115 Astro_capsid: Astrovirus capsid protein precursor; InterPro: IPR004337 The astrovirus genome is apparently organised with nonstructural proteins encoded at the 5' end and structural proteins at the 3' end []. Proteins in this family are encoded by astrovirus ORF2, one of the three astrovirus ORFs (1a, 1b, 2). The proteins contain a viral RNA-dependent RNA polymerase motif []. The 87kDa precursor polyprotein undergoes an intracellular cleavage to form a 79kDa protein. Subsequently, extracellular trypsin cleavage yields the three proteins forming the infectious virion [].; PDB: 3QSQ_A 3TS3_D.
Probab=51.00 E-value=5.1 Score=41.75 Aligned_cols=53 Identities=28% Similarity=0.340 Sum_probs=0.0
Q ss_pred CccceeeeccccccCCCcceeeeccCCCcccCCceeEEeecccccchhheeccccccccccccccccccccccchh
Q 027464 1 MVGALSVVGSSVMDSHAGPCLCLDALPTSVKGGGELVLRRNSSVKRKKVKVAARSLELGSSFVDSWDDWRLSSKVI 76 (223)
Q Consensus 1 mvga~sv~gs~~~d~~~~pc~c~dalp~~~~~~~~~vl~~~~~g~rk~l~v~~~~~~~~ssf~~s~~~wRl~~~~~ 76 (223)
|||+-.|.|+.+. -+|-..+.|+...-+ -.|+|||+.|++| ....|++.+|-+
T Consensus 147 lvG~saV~Gtv~r-----~sln~~~~p~~tsws--------~lgARkH~dv~~G----------~~~~~~l~~r~l 199 (787)
T PF03115_consen 147 LVGASAVSGTVVR-----VSLNLTGTPSSTSWS--------GLGARKHVDVPVG----------RPAVFKLTARDL 199 (787)
T ss_dssp ----------------------------------------------------------------------------
T ss_pred ccCccccCceEEE-----EEecCCCCCCCCCcc--------ccCceeEEEEcCC----------CceEEEECHHHc
Confidence 7999999999864 345667777765533 4799999999876 444788855443
No 10
>PF14677 FANCI_S3: FANCI solenoid 3; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=49.67 E-value=21 Score=31.41 Aligned_cols=35 Identities=29% Similarity=0.472 Sum_probs=22.0
Q ss_pred HHHHhhcC-Ch------hhHHHHHHhHhcCCCCCHHHHHHHHh
Q 027464 128 VLHQLYEM-NP------TQYMWFYNFVATNKPGDGKHFIRILG 163 (223)
Q Consensus 128 VLaQL~Et-NP------~~y~WL~nF~s~n~~qDGe~FL~~L~ 163 (223)
++.+|+.. || ..|.|+.+|+.++++.|-. |+++|+
T Consensus 174 ils~L~~~l~~~s~~~~q~~~W~~~~ck~~~l~d~~-~~k~ll 215 (219)
T PF14677_consen 174 ILSQLSDHLDPSSDQFTQMLSWTLKFCKENSLEDSS-FCKGLL 215 (219)
T ss_dssp HHHHHTTSS-SSSSHHHHHHHHHHHHHHS---S-HH-HHHHHH
T ss_pred HHHHHHhccCCCCHHHHHHHHHHHHHHHhcCCCcHH-HHHHHH
Confidence 45555554 22 6799999999999998765 777775
No 11
>PRK12720 secretion system apparatus protein SsaV; Provisional
Probab=49.46 E-value=29 Score=35.83 Aligned_cols=50 Identities=6% Similarity=0.031 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccc
Q 027464 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 114 k~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
++...+|++|-++..+++|++.+|..-..+.+-+ +++.=.+=|+.|++|+
T Consensus 478 ~~a~ellg~qev~~Lld~l~~~~p~Lv~el~~~l---~l~~i~~VLq~LL~E~ 527 (675)
T PRK12720 478 RYMGEFIGVQETRYLMDAMEKRYGELVKELQRQL---PVGKIAEILQRLVSER 527 (675)
T ss_pred HHHHHHcCHHHHHHHHHHHHHHHHHHHHHHhccC---CHHHHHHHHHHHHhcC
Confidence 4567899999999999999999999988885433 4555556888888885
No 12
>cd02518 GT2_SpsF SpsF is a glycosyltrnasferase implicated in the synthesis of the spore coat. Spore coat polysaccharide biosynthesis protein F (spsF) is a glycosyltransferase implicated in the synthesis of the spore coat in a variety of bacteria challenged by stress as starvation. The spsF gene is expressed in the late stage of coat development responsible for a terminal step in coat formation that involves the glycosylation of the coat. SpsF gene mutation resulted in spores that appeared normal. But, the spores tended to aggregate and had abnormal adsorption properties, indicating a surface alteration.
Probab=46.25 E-value=23 Score=29.38 Aligned_cols=30 Identities=17% Similarity=0.406 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhcCChh-hHHHHHHhHhcCC
Q 027464 122 YKAVRTVLHQLYEMNPT-QYMWFYNFVATNK 151 (223)
Q Consensus 122 YqAVRtVLaQL~EtNP~-~y~WL~nF~s~n~ 151 (223)
|+.++.+..+|++.||+ -+.|+.+|+.+||
T Consensus 195 ~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~p 225 (233)
T cd02518 195 FELIKEIYEALYPKNPDFSLEDIIELLDKNP 225 (233)
T ss_pred HHHHHHHHHHhcCCCCCCCHHHHHHHHHhCh
Confidence 35567777788888875 8899999998776
No 13
>smart00302 GED Dynamin GTPase effector domain.
Probab=45.42 E-value=30 Score=26.24 Aligned_cols=14 Identities=14% Similarity=-0.145 Sum_probs=11.2
Q ss_pred HHHHhccchhhhhh
Q 027464 159 IRILGKVVSETFVL 172 (223)
Q Consensus 159 L~~L~rE~qeLA~R 172 (223)
+..|++|+|+.|.|
T Consensus 58 ~~~LL~E~~~i~~k 71 (92)
T smart00302 58 LDELLEEDPEIASK 71 (92)
T ss_pred HHHHHcCCHHHHHH
Confidence 78899999887654
No 14
>TIGR01399 hrcV type III secretion protein, HrcV family. Members of this family are closely homologous to the flagellar biosynthesis protein FlhA (TIGR01398) and should all participate in type III secretion systems. Examples include InvA (Salmonella enterica), LcrD (Yersinia enterocolitica), HrcV (Xanthomonas), etc. Type III secretion systems resemble flagellar biogenesis systems, and may share the property of translocating special classes of peptides through the membrane.
Probab=43.02 E-value=43 Score=34.65 Aligned_cols=50 Identities=12% Similarity=0.077 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccc
Q 027464 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 114 k~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
++...+|+.|-++..+++|++.+|..-..+-+-+ ++++=.+=|+.|++|+
T Consensus 482 ~~a~ellgrqe~~~Lld~l~~~~p~Lv~Elp~~~---~l~~i~~VLq~LL~E~ 531 (677)
T TIGR01399 482 RNAQEFIGIQETRYLLDQMEREYPELVKEVQRVL---PLQRIAEVLQRLVSEQ 531 (677)
T ss_pred HHHHHHcCHHHHHHHHHHHHHHHHHHHHHHhccC---CHHHHHHHHHHHHhCC
Confidence 4578899999999999999999999888874443 3344445777787775
No 15
>PF14842 FliG_N: FliG N-terminal domain; PDB: 3HJL_A 3AJC_A 3USY_B.
Probab=39.42 E-value=1.4e+02 Score=23.13 Aligned_cols=65 Identities=17% Similarity=0.275 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH---hhcCChhh----HHHHHH-h-HhcCCCCCHHHHHHHHhccc--hhhhhhhh
Q 027464 110 EDVKKQIQNYFTYKAVRTVLHQ---LYEMNPTQ----YMWFYN-F-VATNKPGDGKHFIRILGKVV--SETFVLFL 174 (223)
Q Consensus 110 ~DtAk~L~nYfTYqAVRtVLaQ---L~EtNP~~----y~WL~n-F-~s~n~~qDGe~FL~~L~rE~--qeLA~RIM 174 (223)
+|.|..+..+|+=.-++.|... |...+|.. ...|++ . .....+..|..|++.|+... ++-|..||
T Consensus 20 ee~Aa~vlk~l~~~ei~~i~~~ma~l~~v~~~~~~~Vl~EF~~~~~~~~~~~~gg~~~~~~lL~~alg~~~a~~il 95 (108)
T PF14842_consen 20 EEAAAEVLKHLDEEEIERISREMAKLGSVSPEEVEEVLEEFYDEIRAQGGIVSGGRDFARRLLEKALGEEKAKEIL 95 (108)
T ss_dssp HHHHHHHHHHS-HHHHHHHHHHHHT-----HHHHHHHHHHHHHHHHHTT---S-HHHHHHH-HHHHS---HHHHH-
T ss_pred HHHHHHHHccCCHHHHHHHHHHHHccCCCCHHHHHHHHHHHHHHHHHccccccChHHHHHHHHHHHCCHHHHHHHH
Confidence 4777788888998888887654 44445532 233333 2 22445589999999999875 78888886
No 16
>cd08330 CARD_ASC_NALP1 Caspase activation and recruitment domain found in Human ASC, NALP1, and similar proteins. Caspase activation and recruitment domain (CARD) similar to those found in human ASC (Apoptosis-associated speck-like protein containing a CARD) and NALP1 (CARD7, NLRP1). ASC, an adaptor molecule, and NALP1, a member of the Nod-like receptor (NLR) family, are involved in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. In general, CARDs are death domains (DDs) associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation and host-defense mechanisms. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by self-association or heterodimers by associating with other members of the DD superfamily including PYRIN and DED (Death Effector Domain). They se
Probab=38.68 E-value=66 Score=24.11 Aligned_cols=52 Identities=15% Similarity=0.088 Sum_probs=41.0
Q ss_pred HHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccchhhhhhh
Q 027464 120 FTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVVSETFVLF 173 (223)
Q Consensus 120 fTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~RI 173 (223)
+|..-...|.+ +.|++.++.-|.+++.+-.++-=+.|+.+|-..+|.|+...
T Consensus 30 it~e~~~~I~a--~~T~~~kar~Lld~l~~kG~~A~~~F~~~L~e~~p~L~~~L 81 (82)
T cd08330 30 ITQEQYSEVRA--EKTNQEKMRKLFSFVRSWGASCKDIFYQILREEEPYLVEDL 81 (82)
T ss_pred CCHHHHHHHHc--CCCcHHHHHHHHHHHHccCHHHHHHHHHHHHHhChHHHhHc
Confidence 44444444444 55789999999999998888888999999988889998653
No 17
>PRK06012 flhA flagellar biosynthesis protein FlhA; Validated
Probab=37.72 E-value=61 Score=33.50 Aligned_cols=50 Identities=14% Similarity=0.119 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCChhhHHHH-HHhHhcCCCCCHHHHHHHHhccc
Q 027464 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWF-YNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 114 k~L~nYfTYqAVRtVLaQL~EtNP~~y~WL-~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
++...+|++|-++..|++|++.+|..-..| .+=+ +++.=-+=|+.|++|+
T Consensus 498 ~~a~ellgrQEvq~LLD~L~~~~p~LVeElvp~~l---~l~~Iq~VLq~LL~E~ 548 (697)
T PRK06012 498 NHAAELLGRQEVQQLLDRLAKEYPKLVEELVPKVL---SLGTLQKVLQNLLKER 548 (697)
T ss_pred HhHHHHhCHHHHHHHHHHHHHhChHHHHHhccccC---CHHHHHHHHHHHHhCC
Confidence 457889999999999999999999887774 2222 2233334566666663
No 18
>PF12309 KBP_C: KIF-1 binding protein C terminal; InterPro: IPR022083 This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 365 and 621 amino acids in length. There is a conserved LLP sequence motif. KBP is a binding partner for KIF1Balpha that is a regulator of its transport function and thus represents a type of kinesin interacting protein.
Probab=32.83 E-value=42 Score=31.70 Aligned_cols=40 Identities=18% Similarity=0.509 Sum_probs=28.6
Q ss_pred hhHHHHHHhHhcCCCCCHHHHHHHHhccchhhhhhhhhhhhhhhhhhhhhhhchhhhhhc
Q 027464 138 TQYMWFYNFVATNKPGDGKHFIRILGKVVSETFVLFLFLNIKRNASTEDVVCVFPLKLQN 197 (223)
Q Consensus 138 ~~y~WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~RIM~ltVvRea~Aeev~eflPe~~~~ 197 (223)
..|.|+.+|+..|+. .-+.|-+ ++ .+|+|+++.||.++.+
T Consensus 330 ~~y~~vv~y~~~~~~-~~~~~~~----------------El---~l~~EM~~LLP~Ki~~ 369 (371)
T PF12309_consen 330 EYYKWVVDYCEKHPE-AAEEFEE----------------EL---ELCREMVQLLPLKINR 369 (371)
T ss_pred HHHHHHHHHHHhChh-hHHHHHH----------------HH---HHHHHHHHHHHHHHHh
Confidence 679999999998887 1111111 11 4589999999999875
No 19
>PF08780 NTase_sub_bind: Nucleotidyltransferase substrate binding protein like; InterPro: IPR010235 The member of this family from Haemophilus influenzae, HI0074, has been shown by crystal structure to resemble nucleotidyltransferase substrate binding proteins []. It forms a complex with HI0073 (P43933 from SWISSPROT), encoded by the adjacent gene, which contains a nucleotidyltransferase nucleotide binding domain (IPR002934 from INTERPRO). Double- and single-stranded DNA binding assays showed no evidence of DNA binding to HI0074 or to HI0073/HI0074 complex despite the suggestive shape of the putative binding cleft formed by the HI0074 dimer []. ; PDB: 1WWP_A 1JOG_A 1WTY_C 2YWA_B.
Probab=32.77 E-value=59 Score=25.97 Aligned_cols=31 Identities=19% Similarity=0.202 Sum_probs=23.6
Q ss_pred HHHhHhcCCCCCHHHHHHHHhccc-------hhhhhhh
Q 027464 143 FYNFVATNKPGDGKHFIRILGKVV-------SETFVLF 173 (223)
Q Consensus 143 L~nF~s~n~~qDGe~FL~~L~rE~-------qeLA~RI 173 (223)
+......+=|.|||.|++-+-..| .+.|..|
T Consensus 66 ~r~A~~~glI~d~e~Wl~m~~~RN~tsHtYde~~a~~i 103 (124)
T PF08780_consen 66 FREAFKAGLIDDGEIWLDMLEDRNLTSHTYDEETAEEI 103 (124)
T ss_dssp HHHHHHTTSSSHHHHHHHHHHHHHHGGGTTSHHHHHHH
T ss_pred HHHHHHcCCCCCHHHHHHHHHHhccccCCCCHHHHHHH
Confidence 777788899999999999876554 4555555
No 20
>PF09280 XPC-binding: XPC-binding domain; InterPro: IPR015360 Members of this entry adopt a structure consisting of four alpha helices, arranged in an array. They bind specifically and directly to the xeroderma pigmentosum group C protein (XPC) to initiate nucleotide excision repair []. ; GO: 0003684 damaged DNA binding, 0006289 nucleotide-excision repair, 0043161 proteasomal ubiquitin-dependent protein catabolic process; PDB: 1PVE_A 1QZE_A 1OQY_A 1TP4_A 1X3W_B 3ESW_B 2QSG_X 2QSF_X 1X3Z_B 2QSH_X ....
Probab=32.08 E-value=48 Score=24.00 Aligned_cols=32 Identities=25% Similarity=0.436 Sum_probs=23.0
Q ss_pred HHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHh
Q 027464 124 AVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILG 163 (223)
Q Consensus 124 AVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~ 163 (223)
++..+|.||.++||..+.+..+ |=|+|++-|.
T Consensus 23 lL~~lLqql~~~nP~l~q~I~~--------n~e~Fl~ll~ 54 (59)
T PF09280_consen 23 LLPPLLQQLGQSNPQLLQLIQQ--------NPEEFLRLLN 54 (59)
T ss_dssp GHHHHHHHHHCCSHHHHHHHHH--------THHHHHHHHH
T ss_pred HHHHHHHHHhccCHHHHHHHHH--------CHHHHHHHHc
Confidence 4567889999999998876543 4467776554
No 21
>PF14278 TetR_C_8: Transcriptional regulator C-terminal region
Probab=31.02 E-value=7.9 Score=26.00 Aligned_cols=55 Identities=15% Similarity=0.164 Sum_probs=32.8
Q ss_pred CHHHHHHHHhccchh--hhhhhhhhhhhhhhhhhhhhhchhhhhhccCCeeeeeeeeeeceee
Q 027464 154 DGKHFIRILGKVVSE--TFVLFLFLNIKRNASTEDVVCVFPLKLQNNNPISIMFIMIYLSGFV 214 (223)
Q Consensus 154 DGe~FL~~L~rE~qe--LA~RIM~ltVvRea~Aeev~eflPe~~~~~n~~~~~~~~~ylsg~~ 214 (223)
+-..|++.|+.++.+ ...|+ ++.+.+.+.+.+.+.....++..-.++..+.||.+
T Consensus 13 ~n~~~~~~ll~~~~~~~f~~~l------~~~~~~~~~~~~~~~~~~~~~~~~y~~~f~~sg~i 69 (77)
T PF14278_consen 13 ENRDFYKILLSPNGDPNFQERL------KELIKEWITEYINENSPDNDDPEEYLISFIVSGII 69 (77)
T ss_pred HhHHHHHHHHCCCCCHHHHHHH------HHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHH
Confidence 446899999999854 55566 44555666666555555544433245555556543
No 22
>PRK10356 hypothetical protein; Provisional
Probab=31.00 E-value=1e+02 Score=28.69 Aligned_cols=55 Identities=13% Similarity=0.193 Sum_probs=44.2
Q ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHHhhcCCh-----hhHHHHHHhHhcCCCCCHHHHHHHH
Q 027464 103 GQYEDSFEDVKKQIQNYFTYKAVRTVLHQLYEMNP-----TQYMWFYNFVATNKPGDGKHFIRIL 162 (223)
Q Consensus 103 G~yEd~f~DtAk~L~nYfTYqAVRtVLaQL~EtNP-----~~y~WL~nF~s~n~~qDGe~FL~~L 162 (223)
.+++++|+|=+..|..--.|+-+|.+-+|+...+. ..+.=|.+|+. -|++|++.|
T Consensus 200 ~S~~~Sv~~Y~~nLn~~~aY~~lR~iRa~lR~~~~~lt~~~La~gL~~YSE-----rG~~Yv~~L 259 (274)
T PRK10356 200 SSVKESVSAYVTNLNTHPAYSSFRKSRAQLRKADQEVTATAMIHKLKGYST-----KGSSYNNYL 259 (274)
T ss_pred CCHHHHHHHHHHHHhcChhHHHHHHHHHHHHHccCCCCHHHHHHHHHHHHH-----hHHHHHHHH
Confidence 45678888888888888899999999999987653 45567888887 399998776
No 23
>PRK07194 fliG flagellar motor switch protein G; Reviewed
Probab=30.87 E-value=81 Score=29.12 Aligned_cols=99 Identities=9% Similarity=0.112 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHhhcCChhhHHHH-HHhHh----cCCC-CCHHHHHHHHhccc--hhhhhhhhhhhh
Q 027464 110 EDVKKQIQNYFTYKAVRTVL---HQLYEMNPTQYMWF-YNFVA----TNKP-GDGKHFIRILGKVV--SETFVLFLFLNI 178 (223)
Q Consensus 110 ~DtAk~L~nYfTYqAVRtVL---aQL~EtNP~~y~WL-~nF~s----~n~~-qDGe~FL~~L~rE~--qeLA~RIM~ltV 178 (223)
+|.|..+..+|+=.-++.+. ++|...+|....-. .+|.. ...+ ..|..|++.++... ++-|..|| =.+
T Consensus 22 ee~aa~vl~~L~~~ei~~l~~~m~~l~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il-~~i 100 (334)
T PRK07194 22 EEAAAMVMQQLSREEVQRLSQKMARLSGIKVDQARQVLQRFFDDYREQSGINGASRSYLQRTLNKALGGDIAKSLI-NSI 100 (334)
T ss_pred cHHHHHHHhcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhcCCcccchHHHHHHHHHHHcCHHHHHHHH-HHH
Confidence 46777777888877777755 44555556443322 34443 3444 47789999988764 66777775 111
Q ss_pred hhhhhhhhhhhc--------hhhhhhccCCeeeeeeeeee
Q 027464 179 KRNASTEDVVCV--------FPLKLQNNNPISIMFIMIYL 210 (223)
Q Consensus 179 vRea~Aeev~ef--------lPe~~~~~n~~~~~~~~~yl 210 (223)
........+++ |-.+++++.|..+-.+..||
T Consensus 101 -~~~~~~~~~~~L~~~~~~~la~~l~~EhPQ~iAiiL~~L 139 (334)
T PRK07194 101 -YGDEIRHRMQRLQWVDPQQLARLIANEHLQMQAVFLAFL 139 (334)
T ss_pred -hccccCchHHHHHCCCHHHHHHHHHccCHHHHHHHHHhc
Confidence 11111122333 33456677776655555544
No 24
>TIGR01398 FlhA flagellar biosynthesis protein FlhA. This model describes flagellar biosynthesis protein FlhA, one of a large number of genes associated with the biosynthesis of functional bacterial flagella. Homologs of many such proteins, including FlhA, function in type III protein secretion systems. A separate model describes InvA (Salmonella enterica), LcrD (Yersinia enterocolitica), HrcV (Xanthomonas), etc., all of which score below the noise cutoff for this model.
Probab=28.68 E-value=95 Score=32.22 Aligned_cols=50 Identities=18% Similarity=0.181 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcCChhhHHHHHH-hHhcCCCCCHHHHHHHHhccc
Q 027464 114 KQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYN-FVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 114 k~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~n-F~s~n~~qDGe~FL~~L~rE~ 166 (223)
++...+|++|-+|..+++|++.+|..-..+.- -+ +++.=-+=|+.|++|+
T Consensus 482 ~~a~ellgrqevq~Lld~l~~~~p~lveel~p~~~---~l~~l~~VLq~LL~E~ 532 (678)
T TIGR01398 482 NNAAELLTRQEVQNLLDRLKEEYPKLVEELIPDKV---PLGTIQKVLQLLLRER 532 (678)
T ss_pred HHHHHHcCHHHHHHHHHHHHHHChHHHHHhccCCC---CHHHHHHHHHHHHhcC
Confidence 44678999999999999999999988777643 22 3344456788888885
No 25
>COG2441 Predicted butyrate kinase [Energy production and conversion]
Probab=27.51 E-value=49 Score=31.99 Aligned_cols=66 Identities=24% Similarity=0.257 Sum_probs=43.3
Q ss_pred CChhhHHHHHHhHhcCC----CCCHHHHH---------HHHhccchhhhh-hhhhhhhhhhhhhhhhhhchhhhhhccCC
Q 027464 135 MNPTQYMWFYNFVATNK----PGDGKHFI---------RILGKVVSETFV-LFLFLNIKRNASTEDVVCVFPLKLQNNNP 200 (223)
Q Consensus 135 tNP~~y~WL~nF~s~n~----~qDGe~FL---------~~L~rE~qeLA~-RIM~ltVvRea~Aeev~eflPe~~~~~n~ 200 (223)
||-+.++=|.+++.+-+ .+-|.+|+ ++|-+|+.+|.. ++| =|.+.+.|+..+|..- |
T Consensus 204 MD~ElAYaLa~~~~~fsK~~lf~gGa~~i~gv~sp~ef~~~ake~enle~~~~l-----~e~vvK~v~tllps~~----p 274 (374)
T COG2441 204 MDGELAYALANYLERFSKSLLFEGGAAYIAGVDSPEEFVKLAKEDENLETYNAL-----IEGVVKDVFTLLPSTY----P 274 (374)
T ss_pred ccHHHHHHHHHhhhhccHhheecccccccccCCCHHHHHHHhhcccchHHHHHH-----HHHHHHHHHHhccccC----c
Confidence 56677777775553322 24555554 677888888875 665 4788889999888643 3
Q ss_pred eeeeeeeeeeceee
Q 027464 201 ISIMFIMIYLSGFV 214 (223)
Q Consensus 201 ~~~~~~~~ylsg~~ 214 (223)
.- +||||..
T Consensus 275 d~-----iylSGrf 283 (374)
T COG2441 275 DA-----IYLSGRF 283 (374)
T ss_pred ce-----EEEeeec
Confidence 33 7888853
No 26
>PF10025 DUF2267: Uncharacterized conserved protein (DUF2267); InterPro: IPR018727 This entry contains proteins that have no known function. ; PDB: 2YSK_A.
Probab=27.35 E-value=2.5e+02 Score=21.97 Aligned_cols=77 Identities=25% Similarity=0.267 Sum_probs=43.2
Q ss_pred HHHHHHHHHHHHHHhhcCC------------hhhH-HHHHH---hHhcCCCCCHHHHHHHHhccc--------hhhhhhh
Q 027464 118 NYFTYKAVRTVLHQLYEMN------------PTQY-MWFYN---FVATNKPGDGKHFIRILGKVV--------SETFVLF 173 (223)
Q Consensus 118 nYfTYqAVRtVLaQL~EtN------------P~~y-~WL~n---F~s~n~~qDGe~FL~~L~rE~--------qeLA~RI 173 (223)
..-.|+|++.||.=|.+-= |+.- .-|++ -......-+.+.|+...-++- ..++.-|
T Consensus 18 ~~~A~~a~~avL~~L~~rL~~~ea~~La~qLP~~l~~~l~~gw~~~~~~~~~~~~eF~~rVa~~~~~~~~~~a~~~~~aV 97 (125)
T PF10025_consen 18 REEAYRATRAVLHTLRERLPPEEAADLAAQLPMELRGILYEGWRPSEGPGRFDLDEFLARVAERLGGADEDDAERLARAV 97 (125)
T ss_dssp HHHHHHHHHHHHHHHHTTS-HHHHHHHHTTS-HHHHHHHHTT--TTS-----SHHHHHHHHHHTSEETTEE-HHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHhCCHHHHHHHHhcccCCCCCCCCCHHHHHHHHHHHccCCCcccHHHHHHHH
Confidence 3678899999997776651 3222 22222 222222259999999988842 3466666
Q ss_pred hhhhhhhhhhhh----hhhhchhhhhh
Q 027464 174 LFLNIKRNASTE----DVVCVFPLKLQ 196 (223)
Q Consensus 174 M~ltVvRea~Ae----ev~eflPe~~~ 196 (223)
+ .++|+++-+ +|..-||+-++
T Consensus 98 ~--~~l~~~v~~ge~~~v~~~LP~~~~ 122 (125)
T PF10025_consen 98 F--AALREAVSEGEFEDVRSQLPKDLR 122 (125)
T ss_dssp H--HHHHHHS-HHHHHHHHHTS-HHHH
T ss_pred H--HHHHHHCCHHHHHHHHHHCCHHHH
Confidence 4 555888764 44455777554
No 27
>cd07313 terB_like_2 tellurium resistance terB-like protein, subgroup 2. This family includes several uncharacterized bacterial proteins. Protein sequence homology analysis shows they are similar to tellurium resistance protein terB, but the function of this family is unknown.
Probab=26.42 E-value=2.6e+02 Score=20.42 Aligned_cols=66 Identities=9% Similarity=0.024 Sum_probs=41.5
Q ss_pred HHHHHHHHHhhcCChhhHHHHHHhHhcC--CCCCHHHHHHHHhcc-chhhhhhhhhhhhhhhhhhhhhhh
Q 027464 123 KAVRTVLHQLYEMNPTQYMWFYNFVATN--KPGDGKHFIRILGKV-VSETFVLFLFLNIKRNASTEDVVC 189 (223)
Q Consensus 123 qAVRtVLaQL~EtNP~~y~WL~nF~s~n--~~qDGe~FL~~L~rE-~qeLA~RIM~ltVvRea~Aeev~e 189 (223)
++++.++.+....++....++.+..... ...|=+.|.+.+... +++.-..+|.+-+ +=+||.+..+
T Consensus 22 ~~i~~~l~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~l~~L~-~vA~ADG~~~ 90 (104)
T cd07313 22 AAIDRLLAERFGLDAEEAAELLAEAEALEEEAPDLYEFTSLIKEHFDYEERLELVEALW-EVAYADGELD 90 (104)
T ss_pred HHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHhCCHHHHHHHHHHHH-HHHHhcCCCC
Confidence 4566777787778888888888777653 456778888877543 2444333432232 5577766543
No 28
>PF00771 FHIPEP: FHIPEP family; InterPro: IPR001712 The Flagellar/Hr/Invasion Proteins Export Pore (FHIPEP) family [, ] consists of a number of proteins that constitute the type III secretion (or signal peptide-independent) pathway apparatus [, ]. This mechanism translocates proteins lacking an N-terminal signal peptide across the cell membrane in one step, as it does not require an intermediate periplasmic process to cleave the signal peptide. It is a common pathway amongst Gram-negative bacteria for secreting toxic and flagellar proteins. The pathway apparatus comprises three components: two within the inner membrane and one within the outer []. An FHIPEP protein is located within the inner membrane, although it is unknown which component it constitutes. FHIPEP proteins have all about 700 amino-acid residues. Within the sequence, the N terminus is highly conserved and hydrophobic, suggesting that this terminus is embedded within the membrane, with 6-8 transmembrane (TM) domains, while the C terminus is less conserved and appears to be devoid of TM regions. It is possible that members of the FHIPEP family serve as pores for the export of specific proteins.; GO: 0009306 protein secretion, 0016020 membrane; PDB: 3MIX_A 2X4A_A 3LW9_A 2X49_A 3MYD_A 3A5I_A.
Probab=25.50 E-value=56 Score=33.35 Aligned_cols=52 Identities=12% Similarity=0.099 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccc
Q 027464 113 KKQIQNYFTYKAVRTVLHQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 113 Ak~L~nYfTYqAVRtVLaQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
.+....+|+.|-++..|++|++.+|..-..+. -..-++++=.+=|+.|++|+
T Consensus 467 r~~a~ellg~QEvq~LLd~l~~~~P~LV~El~--p~~l~l~~l~~VLq~LL~E~ 518 (658)
T PF00771_consen 467 RRHAAELLGRQEVQALLDRLEKEYPELVEELI--PRQLPLGRLQEVLQRLLRER 518 (658)
T ss_dssp HHCHHHCHCHHHHHHHHHHHHTTHHHHHHHHC--CCCS-HHHHHHHHHHHHHTT
T ss_pred HHHHHHHhCHHHHHHHHHHHHhhchHHHHHhh--hccCCHHHHHHHHHHHHhCC
Confidence 34456789999999999999999998888773 01222333345566666664
No 29
>PF12234 Rav1p_C: RAVE protein 1 C terminal; InterPro: IPR022033 This domain family is found in eukaryotes, and is typically between 621 and 644 amino acids in length. This family is the C-terminal region of the protein RAVE (regulator of the ATPase of vacuolar and endosomal membranes). Rav1p is involved in regulating the glucose dependent assembly and disassembly of vacuolar ATPase V1 and V0 subunits.
Probab=24.51 E-value=1.2e+02 Score=31.11 Aligned_cols=69 Identities=12% Similarity=0.112 Sum_probs=55.7
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHhhcCC-hhhHHHH-HHhHhcCCCCCHHHHHHHHh---ccchhhhhhhhhhh
Q 027464 108 SFEDVKKQIQNYFTYKAVRTVLHQLYEMN-PTQYMWF-YNFVATNKPGDGKHFIRILG---KVVSETFVLFLFLN 177 (223)
Q Consensus 108 ~f~DtAk~L~nYfTYqAVRtVLaQL~EtN-P~~y~WL-~nF~s~n~~qDGe~FL~~L~---rE~qeLA~RIM~lt 177 (223)
.++|+..++.+++.=.-+-++++-|+|-+ .|.+.+| .+++--..+++||.|++... -.+++.|.|.+ ++
T Consensus 480 ~l~dAv~V~~~~l~D~qLAi~i~Rl~e~d~gp~~~~ll~~~vLp~a~~~~d~wl~s~~~W~L~~~~~ai~~L-i~ 553 (631)
T PF12234_consen 480 SLKDAVNVCLRQLNDPQLAIAIARLYEGDNGPVLKKLLEEHVLPEAIKEGDRWLASWAFWMLGDYDEAIRAL-IS 553 (631)
T ss_pred cHHHHHHHHHHHccChhHHHHHHHHHcCCCchHHHHHHHHhhhccccccCCHHHHHHHHHhcCCHHHHHHHH-hc
Confidence 47889999999998888999999999986 4555554 47887778899999999864 35688999998 44
No 30
>PF01253 SUI1: Translation initiation factor SUI1; InterPro: IPR001950 In Saccharomyces cerevisiae (Baker's yeast), SUI1 is a translation initiation factor that functions in concert with eIF-2 and the initiator tRNA-Met in directing the ribosome to the proper start site of translation []. SUI1 is a protein of 108 residues. Close homologs of SUI1 have been found [] in mammals, insects and plants. SUI1 is also evolutionary related to hypothetical proteins from Escherichia coli (yciH), Haemophilus influenzae (HI1225) and Methanococcus vannielii.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2OGH_A 1D1R_A 2IF1_A 2XZN_F 2XZM_F.
Probab=24.00 E-value=98 Score=22.87 Aligned_cols=30 Identities=17% Similarity=0.348 Sum_probs=23.1
Q ss_pred cCCCccEEeecCCCccccchHHHHHHHHHHH
Q 027464 90 RRDRRPVIVNEVGGQYEDSFEDVKKQIQNYF 120 (223)
Q Consensus 90 r~~~~l~Iv~~~~G~yEd~f~DtAk~L~nYf 120 (223)
+.++.+.+|..+. .|+.++++.|+.|..-|
T Consensus 15 ~~~K~vT~V~gl~-~~~~d~~~lak~lkk~~ 44 (83)
T PF01253_consen 15 RGRKFVTIVSGLE-LFGIDLKELAKELKKKF 44 (83)
T ss_dssp SSSEEEEEEES---STTSHHHHHHHHHHHHH
T ss_pred cCCeEEEEEECCc-ccccCHHHHHHHHHHhc
Confidence 4577888998888 68888999999998766
No 31
>cd08321 Pyrin_ASC-like Pyrin Death Domain found in ASC. Pyrin Death Domain found in ASC (Apoptosis-associated speck-like protein containing a CARD) and similar proteins. ASC is an adaptor molecule that functions in the assembly of the 'inflammasome', a multiprotein platform, which is responsible for caspase-1 activation and regulation of IL-1beta maturation. ASC contains two domains from the Death Domain (DD) superfamily, an N-terminal pyrin-like domain and a C-terminal Caspase activation and recruitment domain (CARD). Through these 2 domains, ASC serves as an adaptor for inflammasome integrity and oligomerizes to form supramolecular assemblies. Other members of this subfamily are associated with ATPase domains and their function remains unknown. In general, Pyrin is a subfamily of the DD superfamily and functions in several signaling pathways. DDs are protein-protein interaction domains found in a variety of domain architectures. Their common feature is that they form homodimers by se
Probab=23.68 E-value=97 Score=23.36 Aligned_cols=30 Identities=20% Similarity=0.293 Sum_probs=26.0
Q ss_pred chHHHHHHHHHHHH-HHHHHHHHHHhhcCCh
Q 027464 108 SFEDVKKQIQNYFT-YKAVRTVLHQLYEMNP 137 (223)
Q Consensus 108 ~f~DtAk~L~nYfT-YqAVRtVLaQL~EtNP 137 (223)
+-.|+|..|.+||. ..|+.+++.=|..+|-
T Consensus 43 d~~dla~lLv~~y~~~~A~~vt~~il~~in~ 73 (82)
T cd08321 43 DRVDLVDKMVQFYGEEYAVEVTVKILRKMNQ 73 (82)
T ss_pred CHHHHHHHHHHHcChhHHHHHHHHHHHHhcc
Confidence 45689999999997 7799999999999985
No 32
>PF11381 DUF3185: Protein of unknown function (DUF3185); InterPro: IPR021521 Some members in this bacterial family of proteins are annotated as membrane proteins however this cannot be confirmed. Currently no function is known.
Probab=22.74 E-value=1.1e+02 Score=22.47 Aligned_cols=31 Identities=19% Similarity=0.444 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhcC----ChhhHHHHH
Q 027464 114 KQIQNYFTYKAVRTVLHQLYEM----NPTQYMWFY 144 (223)
Q Consensus 114 k~L~nYfTYqAVRtVLaQL~Et----NP~~y~WL~ 144 (223)
-...-||.|||-.-+-+|+.|. .+++..|++
T Consensus 11 GivLl~~G~~~~~S~~s~~s~~~TG~~t~~t~~~l 45 (59)
T PF11381_consen 11 GIVLLYFGYQASDSLGSQVSRAFTGSPTDKTIWYL 45 (59)
T ss_pred HHHHHHhhhhhhhhHHHHHHHHhcCCCCchhHHHH
Confidence 3556799999999999999987 456777764
No 33
>KOG2229 consensus Protein required for actin cytoskeleton organization and cell cycle progression [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton]
Probab=22.35 E-value=1.2e+02 Score=31.25 Aligned_cols=57 Identities=21% Similarity=0.194 Sum_probs=43.5
Q ss_pred HHHHHHHHHHHH----------HHHHHHH-HHhhcCChhhHHHHHHhHhcCCCCCHHHHHHHHhccchhhhh
Q 027464 111 DVKKQIQNYFTY----------KAVRTVL-HQLYEMNPTQYMWFYNFVATNKPGDGKHFIRILGKVVSETFV 171 (223)
Q Consensus 111 DtAk~L~nYfTY----------qAVRtVL-aQL~EtNP~~y~WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~ 171 (223)
|+.+.++++.+- +|++.|. .|=..-|+|.. ||++=|-+.|-..|-+.||++-+.--+
T Consensus 183 ~~~~l~~~~vnkktkkr~~kl~~a~k~vkkkqk~~~~~~t~----nfs~i~ll~DpQ~fAEkLfk~~~~~~e 250 (616)
T KOG2229|consen 183 DADALLHQRVNKKTKKRQKKLLRAAKSVKKKQKKKKNAPTF----NFSAIHLLHDPQGFAEKLFKQLLACKE 250 (616)
T ss_pred cHHHHHHHHHhccchhhHHHHHHHHHHHHHHHhcCCCCCCC----CccHHHhhcChhHHHHHHHHHHhhhhh
Confidence 778888888542 3555554 56667788877 999999999999999999998654333
No 34
>cd04236 AAK_NAGS-Urea AAK_NAGS-Urea: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the urea cycle found in animals. Ureogenic NAGS is a mitochondrial enzyme catalyzing the formation of NAG from acetylcoenzyme A and L-glutamate; NAG is an essential allosteric activator of carbamylphosphate synthase I, the first and rate limiting enzyme of the urea cycle. Ureogenic NAGS activity is dependent on the concentration of glutamate (substrate) and arginine (activator). Domain architecture of ureogenic NAGS consists of an N-terminal NAG kinase-like (ArgB) domain (this CD) and a C-terminal DUF619 domain. Members of this CD belong to the protein superfamily, the Amino Acid Kinase Family (AAKF).
Probab=22.26 E-value=45 Score=30.27 Aligned_cols=30 Identities=23% Similarity=0.370 Sum_probs=25.6
Q ss_pred HHHHHHHHHHhhcCChhhHHHHHHhHhcCC
Q 027464 122 YKAVRTVLHQLYEMNPTQYMWFYNFVATNK 151 (223)
Q Consensus 122 YqAVRtVLaQL~EtNP~~y~WL~nF~s~n~ 151 (223)
|+.++--|.|....-.+.-.||.+|.+.+|
T Consensus 2 ~~~~~~~~~~~~~~~~e~~~~l~~f~~~~~ 31 (271)
T cd04236 2 YRDVKAFLHQKGGDPREARYWLTQFQIAMP 31 (271)
T ss_pred cchHHHHHHHhCCCHHHHHHHHHHhhccCC
Confidence 678888889988776789999999999865
No 35
>PRK05910 type III secretion system protein; Validated
Probab=22.04 E-value=1.2e+02 Score=31.17 Aligned_cols=51 Identities=8% Similarity=0.059 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcCChhhHHHH-HHhHhcCCCCCHHHHHHHHhccc
Q 027464 113 KKQIQNYFTYKAVRTVLHQLYEMNPTQYMWF-YNFVATNKPGDGKHFIRILGKVV 166 (223)
Q Consensus 113 Ak~L~nYfTYqAVRtVLaQL~EtNP~~y~WL-~nF~s~n~~qDGe~FL~~L~rE~ 166 (223)
.+....+|++|-++..+++|++.+|..-..+ .+-+ ++++=-+=|+.|++|+
T Consensus 389 ~~~a~ellgrqevq~Lld~l~~~~p~lVeelvp~~l---~l~~i~~VLq~LL~E~ 440 (584)
T PRK05910 389 RNLAPEAISERFVKRLVEEFQEVAGISIEEIIPKKI---SENSLVFLLRALVRER 440 (584)
T ss_pred HHhHHHHcCHHHHHHHHHHHHHhChHHHHHhcccCC---CHHHHHHHHHHHHhcC
Confidence 3557889999999999999999999877664 2222 2333345677777774
No 36
>PRK07920 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=21.27 E-value=83 Score=27.82 Aligned_cols=25 Identities=4% Similarity=0.119 Sum_probs=17.2
Q ss_pred HHHHHHHHhhcC---ChhhHHHHHHhHh
Q 027464 124 AVRTVLHQLYEM---NPTQYMWFYNFVA 148 (223)
Q Consensus 124 AVRtVLaQL~Et---NP~~y~WL~nF~s 148 (223)
.++.+.++|+++ +|++|.|+|+.=.
T Consensus 255 ~t~~~~~~lE~~Ir~~PeQW~W~h~RWk 282 (298)
T PRK07920 255 MTQALADAFAANIAAHPEDWHMLQPLWL 282 (298)
T ss_pred HHHHHHHHHHHHHHhChHHHhHhHHHhc
Confidence 344445555555 8999999998754
No 37
>PF06713 bPH_4: Bacterial PH domain; InterPro: IPR009589 This entry is represented by Bacteriophage SP-beta, YolF. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several hypothetical proteins specific to Oceanobacillus and Bacillus species. Members of this family are typically around 130 residues in length. The function of this family is unknown.
Probab=21.21 E-value=63 Score=23.51 Aligned_cols=16 Identities=38% Similarity=0.449 Sum_probs=12.0
Q ss_pred CCCCHHHHHHHHhccc
Q 027464 151 KPGDGKHFIRILGKVV 166 (223)
Q Consensus 151 ~~qDGe~FL~~L~rE~ 166 (223)
+|+|=|.|+++|.+.|
T Consensus 59 sP~~~~~FI~~L~k~n 74 (74)
T PF06713_consen 59 SPKDKEEFIAELQKRN 74 (74)
T ss_pred ECCCHHHHHHHHHhhC
Confidence 5788888888887654
No 38
>PRK08943 lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase; Validated
Probab=20.92 E-value=1.5e+02 Score=26.47 Aligned_cols=26 Identities=27% Similarity=0.620 Sum_probs=16.8
Q ss_pred HHHHHHHHhhc---CChhhHHHHHHhHhc
Q 027464 124 AVRTVLHQLYE---MNPTQYMWFYNFVAT 149 (223)
Q Consensus 124 AVRtVLaQL~E---tNP~~y~WL~nF~s~ 149 (223)
.++.+.+.|++ .+|++|.|+|+==.+
T Consensus 277 ~t~~~~~~lE~~Ir~~PeQw~W~hrRwK~ 305 (314)
T PRK08943 277 IARRMNEEVEQFVGPHPEQYMWILKLLKT 305 (314)
T ss_pred HHHHHHHHHHHHHHcCcHHHHHHHhhcCC
Confidence 33344444444 489999999985554
No 39
>PF10963 DUF2765: Protein of unknown function (DUF2765); InterPro: IPR024406 This family of proteins with no known function is found in phages and suspected prophages.
Probab=20.82 E-value=75 Score=24.75 Aligned_cols=31 Identities=10% Similarity=0.028 Sum_probs=24.4
Q ss_pred HHhHhcCCCCCHHHHHHHHhccchhhhhhhh
Q 027464 144 YNFVATNKPGDGKHFIRILGKVVSETFVLFL 174 (223)
Q Consensus 144 ~nF~s~n~~qDGe~FL~~L~rE~qeLA~RIM 174 (223)
+||+.+-=-++.+.-|++|+.+.|..|+.|.
T Consensus 36 ~n~L~r~V~~e~KeaL~~lle~~PGaa~qia 66 (83)
T PF10963_consen 36 HNYLMRIVDPESKEALKELLEENPGAAMQIA 66 (83)
T ss_pred HHHHHHHcCHHHHHHHHHHHHHCCCHHHHHH
Confidence 4555544457889999999999999998885
No 40
>TIGR00512 salvage_mtnA S-methyl-5-thioribose-1-phosphate isomerase. The delineation of this family was based in part on a discussion and neighbor-joining phylogenetic study, by Kyrpides and Woese, of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. This clade is now recognized to include the methionine salvage pathway enzyme MtnA.
Probab=20.69 E-value=3.3e+02 Score=25.68 Aligned_cols=65 Identities=12% Similarity=-0.005 Sum_probs=46.5
Q ss_pred HHHHHHHHhhcCChhh------HHHHHHhHhcCCCCCHHHHHHHHhccchhhhhhhhhhhhhhhhhhhhhhhchhh
Q 027464 124 AVRTVLHQLYEMNPTQ------YMWFYNFVATNKPGDGKHFIRILGKVVSETFVLFLFLNIKRNASTEDVVCVFPL 193 (223)
Q Consensus 124 AVRtVLaQL~EtNP~~------y~WL~nF~s~n~~qDGe~FL~~L~rE~qeLA~RIM~ltVvRea~Aeev~eflPe 193 (223)
.++-..++|.++.|.. -.++..|++. ..|.+.-.+.|+.+-.++..+.- +. ++.+++.-.+++++
T Consensus 72 ~l~~~~~~L~~~RPtavnL~~A~~~~~~~i~~--~~~~~~~k~~l~e~a~~~~~e~~--~~-~~~I~~~g~~~I~d 142 (331)
T TIGR00512 72 LLEEKLQYLVSSRPTAVNLSWALDRMRAALEA--AKTVADIKEALLAEAERILEEDL--ED-NRAIGENGAALIKK 142 (331)
T ss_pred HHHHHHHHHHHhCCcHhhHHHHHHHHHHHHhc--cCCHHHHHHHHHHHHHHHHHHHH--HH-HHHHHHHHHHHhcC
Confidence 3456678888887743 3456666664 37888888888887778777773 64 88888888888774
No 41
>TIGR00207 fliG flagellar motor switch protein FliG. The fliG protein along with fliM and fliN interact to form the switch complex of the bacterial flagellar motor located at the base of the basal body. This complex interacts with chemotaxis proteins (eg CHEY). In addition the complex interacts with other components of the motor that determine the direction of flagellar rotation. The model contains putative members of the fliG family at scores of less than 100 from Agrobacterium radiobacter and Sinorhizobium meliloti as well as fliG-like genes from treponema pallidum and Borrelia burgdorferi. That is why the suggested cutoff is set at 20 but was set at 100 to construct the family.
Probab=20.57 E-value=1.5e+02 Score=27.57 Aligned_cols=100 Identities=14% Similarity=0.141 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHHHHHHHH---HHhhcCChhhHHHH-HHhH---hcCC-C-CCHHHHHHHHhccc--hhhhhhhhhhhh
Q 027464 110 EDVKKQIQNYFTYKAVRTVL---HQLYEMNPTQYMWF-YNFV---ATNK-P-GDGKHFIRILGKVV--SETFVLFLFLNI 178 (223)
Q Consensus 110 ~DtAk~L~nYfTYqAVRtVL---aQL~EtNP~~y~WL-~nF~---s~n~-~-qDGe~FL~~L~rE~--qeLA~RIM~ltV 178 (223)
+|+|..+..+|+=.-++.+. ++|...+|....-. .+|. ..++ + ..|..|++.++... ++-|..|| =.+
T Consensus 24 ee~aa~vlk~L~~~ei~~l~~~m~~l~~v~~~~~~~vl~eF~~~~~~~~~~~~g~~~~~~~~L~~alg~~~a~~il-~~i 102 (338)
T TIGR00207 24 EDRSAEVFKHLSQEEIETLSAEIANVTQIDNQQKDDVLEEFEQIAEAQAYINIGGLDYAREVLEKALGEEKAASIL-NDL 102 (338)
T ss_pred cHhHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCCccCChHHHHHHHHHHhcCHHHHHHHH-HHH
Confidence 36677777788877777754 55556666443322 3343 3333 3 47899999998774 77888886 121
Q ss_pred hhhhhhhh-hhhch--------hhhhhccCCeeeeeeeeeec
Q 027464 179 KRNASTED-VVCVF--------PLKLQNNNPISIMFIMIYLS 211 (223)
Q Consensus 179 vRea~Aee-v~efl--------Pe~~~~~n~~~~~~~~~yls 211 (223)
....... .+++| -.+++++.|..+-.+..||.
T Consensus 103 -~~~~~~~~~~~~L~~~~~~~la~~l~~EhPQ~iAliLs~L~ 143 (338)
T TIGR00207 103 -TSSLQTAPGFEFLRKAEPQQIADFIQQEHPQTIALILSHLD 143 (338)
T ss_pred -hcccccCchhHHHHCCCHHHHHHHHHccCHHHHHHHHHcCC
Confidence 1111111 34443 23467778777666666653
No 42
>PF07878 DUF1662: Protein of unknown function (DUF1662); InterPro: IPR012869 The proteins in this family have not been characterised, but contain a ribbon-helix-helix domain, making them a family of putative repressors.
Probab=20.43 E-value=39 Score=24.45 Aligned_cols=20 Identities=15% Similarity=0.476 Sum_probs=16.3
Q ss_pred ChhhHHHHHHhHhcCCCCCHH
Q 027464 136 NPTQYMWFYNFVATNKPGDGK 156 (223)
Q Consensus 136 NP~~y~WL~nF~s~n~~qDGe 156 (223)
| |.|.|+.+|+-+..|+-+.
T Consensus 34 ~-~l~~~ic~~Li~r~Isr~~ 53 (55)
T PF07878_consen 34 N-PLFTWICDFLINRSISRAL 53 (55)
T ss_pred c-hhHHHHHHHHHHHHHHHHh
Confidence 5 9999999999887776554
Done!