Query 031468
Match_columns 159
No_of_seqs 114 out of 521
Neff 7.2
Searched_HMMs 46136
Date Fri Mar 29 14:32:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/031468.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/031468hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1664 Vacuolar H+-ATPase V1 100.0 3.4E-39 7.4E-44 248.7 17.6 147 1-158 72-218 (220)
2 PRK03963 V-type ATP synthase s 100.0 1.6E-29 3.4E-34 197.3 17.1 131 3-155 68-198 (198)
3 PF01991 vATP-synt_E: ATP synt 99.9 4.3E-28 9.3E-33 187.9 7.2 140 3-154 59-198 (198)
4 PRK02292 V-type ATP synthase s 99.9 1E-26 2.2E-31 180.3 14.8 122 3-156 67-188 (188)
5 PRK01194 V-type ATP synthase s 99.9 7.1E-24 1.5E-28 164.6 13.8 114 5-156 69-182 (185)
6 COG1390 NtpE Archaeal/vacuolar 99.9 4.6E-22 1E-26 155.3 14.3 127 3-156 68-194 (194)
7 PRK01558 V-type ATP synthase s 99.7 1E-15 2.2E-20 120.0 15.7 126 4-153 70-195 (198)
8 PRK01005 V-type ATP synthase s 99.5 2.6E-13 5.6E-18 107.1 14.0 123 5-156 76-207 (207)
9 TIGR03825 FliH_bacil flagellar 99.1 5.9E-09 1.3E-13 84.6 13.8 114 14-150 135-249 (255)
10 PRK06937 type III secretion sy 99.0 1.2E-08 2.6E-13 80.2 13.2 112 12-148 90-202 (204)
11 PRK06669 fliH flagellar assemb 98.9 3E-08 6.6E-13 81.4 13.7 112 13-147 164-276 (281)
12 PRK06328 type III secretion sy 98.9 6.2E-08 1.4E-12 77.4 13.9 113 14-149 91-204 (223)
13 PRK13386 fliH flagellar assemb 98.8 1.4E-07 3E-12 75.9 11.6 104 14-146 121-226 (236)
14 PF02108 FliH: Flagellar assem 98.7 3.7E-07 8E-12 65.7 12.2 101 13-140 25-127 (128)
15 PRK05687 fliH flagellar assemb 98.6 7.8E-07 1.7E-11 71.7 12.4 107 14-147 134-242 (246)
16 PRK09098 type III secretion sy 98.6 1.6E-06 3.5E-11 69.7 14.0 110 13-148 111-222 (233)
17 COG1317 FliH Flagellar biosynt 98.6 1.4E-06 3.1E-11 70.0 13.3 112 13-149 115-228 (234)
18 PRK06032 fliH flagellar assemb 98.3 2.1E-05 4.6E-10 61.7 12.2 109 14-145 86-196 (199)
19 TIGR02499 HrpE_YscL_not type I 98.2 2E-05 4.3E-10 59.3 10.2 70 38-129 94-164 (166)
20 TIGR03321 alt_F1F0_F0_B altern 97.7 0.0027 5.8E-08 51.3 14.2 109 14-145 122-245 (246)
21 PRK13436 F0F1 ATP synthase sub 97.6 0.0016 3.5E-08 50.1 11.4 64 62-146 115-178 (179)
22 PRK13430 F0F1 ATP synthase sub 97.4 0.004 8.7E-08 51.1 12.3 87 38-145 182-269 (271)
23 PF06188 HrpE: HrpE/YscL/FliH 97.3 0.0066 1.4E-07 47.4 11.8 100 6-131 83-182 (191)
24 PRK13434 F0F1 ATP synthase sub 97.2 0.009 1.9E-07 46.1 11.8 31 114-146 144-174 (184)
25 PF06635 NolV: Nodulation prot 97.2 0.013 2.8E-07 46.3 12.5 109 13-147 91-200 (207)
26 PRK13428 F0F1 ATP synthase sub 97.2 0.0076 1.6E-07 52.8 12.2 86 39-145 357-443 (445)
27 PRK13441 F0F1 ATP synthase sub 96.6 0.06 1.3E-06 41.3 11.3 31 114-146 147-177 (180)
28 COG0712 AtpH F0F1-type ATP syn 96.5 0.054 1.2E-06 41.9 10.9 30 114-145 148-177 (178)
29 PRK05758 F0F1 ATP synthase sub 96.1 0.18 3.9E-06 38.4 11.7 30 114-145 146-175 (177)
30 TIGR01145 ATP_synt_delta ATP s 96.0 0.22 4.8E-06 37.8 11.5 29 114-144 143-171 (172)
31 PRK13429 F0F1 ATP synthase sub 95.7 0.35 7.6E-06 36.9 11.5 30 114-145 148-177 (181)
32 CHL00119 atpD ATP synthase CF1 94.3 0.79 1.7E-05 35.2 10.1 31 114-146 150-180 (184)
33 PRK08474 F0F1 ATP synthase sub 92.7 3 6.5E-05 31.8 10.9 32 116-151 143-174 (176)
34 PF00213 OSCP: ATP synthase de 91.2 0.017 3.8E-07 43.7 -3.1 80 61-144 75-171 (172)
35 KOG1662 Mitochondrial F1F0-ATP 89.7 1 2.2E-05 35.5 5.6 29 113-143 176-204 (210)
36 PRK14474 F0F1 ATP synthase sub 86.0 17 0.00036 29.5 13.3 108 13-145 121-245 (250)
37 PF04716 ETC_C1_NDUFA5: ETC co 55.9 48 0.001 20.7 6.5 49 17-74 6-54 (57)
38 COG3882 FkbH Predicted enzyme 50.1 44 0.00094 30.2 5.6 39 114-152 232-270 (574)
39 PF15513 DUF4651: Domain of un 46.0 57 0.0012 20.9 4.3 14 113-128 34-47 (62)
40 PHA03065 Hypothetical protein; 41.7 2.5E+02 0.0054 24.9 11.3 54 41-97 144-197 (438)
41 PF14615 Rsa3: Ribosome-assemb 41.7 62 0.0014 19.5 3.8 38 14-52 3-40 (47)
42 PF08776 VASP_tetra: VASP tetr 39.1 81 0.0018 18.4 4.0 15 6-20 16-30 (40)
43 PF14164 YqzH: YqzH-like prote 39.0 54 0.0012 21.2 3.4 37 40-76 3-39 (64)
44 KOG0066 eIF2-interacting prote 38.2 58 0.0013 29.5 4.5 15 116-130 751-765 (807)
45 PF14676 FANCI_S2: FANCI solen 36.3 1.2E+02 0.0025 22.9 5.4 48 9-56 44-92 (158)
46 PHA03081 putative metalloprote 35.7 3.5E+02 0.0075 24.7 9.1 80 43-142 151-234 (595)
47 PRK01379 cyaY frataxin-like pr 35.6 1.2E+02 0.0026 21.3 5.0 18 38-55 5-22 (103)
48 PF03927 NapD: NapD protein; 31.6 1.3E+02 0.0029 19.7 4.6 19 58-76 7-25 (79)
49 PF02697 DUF217: Uncharacteriz 30.9 1.6E+02 0.0034 19.3 6.0 55 23-82 8-67 (71)
50 PF10946 DUF2625: Protein of u 29.9 39 0.00084 26.9 1.9 32 39-77 11-42 (208)
51 PF08597 eIF3_subunit: Transla 28.8 1.1E+02 0.0024 24.4 4.5 34 21-55 146-179 (245)
52 PF09561 RE_HpaII: HpaII restr 27.8 50 0.0011 28.4 2.4 22 114-135 290-311 (355)
53 PF07960 CBP4: CBP4; InterPro 27.7 47 0.001 24.4 1.9 46 38-83 4-49 (128)
54 PF03410 Peptidase_M44: Protei 27.6 4.8E+02 0.01 23.8 9.0 79 43-141 151-233 (590)
55 COG0217 Uncharacterized conser 26.4 78 0.0017 25.8 3.1 41 39-79 149-191 (241)
56 PF08360 TetR_C_5: QacR-like p 24.9 2.3E+02 0.005 20.4 5.2 42 25-76 55-96 (131)
57 PF02108 FliH: Flagellar assem 23.9 2.5E+02 0.0053 19.2 5.7 72 17-98 6-77 (128)
58 PF02100 ODC_AZ: Ornithine dec 23.7 1.6E+02 0.0034 20.7 4.0 40 38-78 38-77 (108)
59 PF05164 ZapA: Cell division p 23.6 1.6E+02 0.0035 19.0 3.9 33 54-86 6-38 (89)
60 PRK05473 hypothetical protein; 23.1 1.1E+02 0.0025 20.9 3.0 23 2-24 56-79 (86)
61 PF14417 MEDS: MEDS: MEthanoge 21.8 3.6E+02 0.0078 20.3 6.2 42 34-77 27-69 (191)
62 PF08740 BCS1_N: BCS1 N termin 21.7 3.2E+02 0.007 20.3 5.7 30 56-85 127-156 (187)
63 CHL00019 atpF ATP synthase CF0 21.5 3.4E+02 0.0074 20.5 5.8 47 8-54 50-96 (184)
64 PF09413 DUF2007: Domain of un 21.5 98 0.0021 19.1 2.4 20 59-78 46-65 (67)
65 PF12401 DUF3662: Protein of u 21.5 2.1E+02 0.0046 20.2 4.4 45 36-80 26-76 (116)
66 PRK08475 F0F1 ATP synthase sub 21.2 3.6E+02 0.0078 20.2 5.8 47 8-54 48-94 (167)
67 CHL00118 atpG ATP synthase CF0 21.0 3.5E+02 0.0075 19.9 5.8 47 9-55 49-95 (156)
68 PF01709 Transcrip_reg: Transc 20.7 1.2E+02 0.0027 24.2 3.3 40 38-77 144-185 (234)
69 TIGR03299 LGT_TIGR03299 phage/ 20.7 68 0.0015 27.0 1.9 20 119-138 135-165 (309)
70 PF08775 ParB: ParB family; I 20.5 2.8E+02 0.006 20.2 4.8 44 14-57 25-70 (127)
71 PF09888 DUF2115: Uncharacteri 20.1 3.7E+02 0.0079 20.4 5.6 18 113-130 123-140 (163)
72 cd01274 AIDA-1b AIDA-1b Phosph 20.1 3.4E+02 0.0074 19.5 5.3 50 64-132 16-66 (127)
No 1
>KOG1664 consensus Vacuolar H+-ATPase V1 sector, subunit E [Energy production and conversion]
Probab=100.00 E-value=3.4e-39 Score=248.67 Aligned_cols=147 Identities=50% Similarity=0.791 Sum_probs=142.7
Q ss_pred CcchHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHH
Q 031468 1 MQLNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKE 80 (159)
Q Consensus 1 ~~~n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~ 80 (159)
|.+|++|+++|++|+++++.+|++|+++|...+.+++.|+.+|.+||.||+..|.+|.++|+||+.|..+|+..++++..
T Consensus 72 ~~lN~~RlKvL~ar~d~i~~i~~ea~k~Ls~i~~~~~~Y~~lL~~LivQ~Ll~L~Ep~~Ivrcre~D~~lVe~~~~~a~~ 151 (220)
T KOG1664|consen 72 NLLNQSRLKVLRARDDIIDDILDEAKKRLSKVSKDTDRYKKLLKDLIVQGLLQLLEPEVIVRCREKDLKLVEAALPKAIE 151 (220)
T ss_pred HHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcccCChHHHHHHHHHHHHHHHHHhCCCeeEEeehhhhhHHHHHHHHHHHH
Confidence 56899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcCCCC
Q 031468 81 EYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVSQVA 158 (159)
Q Consensus 81 ~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~~~~ 158 (159)
+|+...|. +.++.+|++.|||+ +|.|||++.|.||+|.|+|||++||+.++++.+|+||+.|||.++
T Consensus 152 ~y~~ka~~-~~e~~id~~~fL~~----------~~~GGVvl~s~dgkI~v~NTLesRLeli~~q~lPeIR~aLFG~n~ 218 (220)
T KOG1664|consen 152 EYKEKAGV-GVEVQIDKKDFLPP----------DVAGGVVLYSRDGKIKVSNTLESRLELIAEQKLPEIRKALFGANP 218 (220)
T ss_pred HHHHHhcC-CceeeechhccCCc----------cccCCeEEEcCCCceEecCcHHHHHHHHHHHhhHHHHHHhcCCCC
Confidence 99999998 49999999999987 799999999999999999999999999999999999999999876
No 2
>PRK03963 V-type ATP synthase subunit E; Provisional
Probab=99.97 E-value=1.6e-29 Score=197.33 Aligned_cols=131 Identities=30% Similarity=0.458 Sum_probs=118.3
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHH
Q 031468 3 LNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEY 82 (159)
Q Consensus 3 ~n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~ 82 (159)
.+++|+++|.+|+++++++|++|+++|.+++.+ +|+++|.+||.+|+..+++++++|+|+|.|..++++++.++.+.+
T Consensus 68 ~~e~r~~~l~ar~el~~~v~~~a~~~l~~~~~~--~Y~~~l~~li~~a~~~l~~~~i~i~~~~~D~~~~~~~~~~~~~~~ 145 (198)
T PRK03963 68 KLEVRRKRLAVQEELISEVLEAVRERLAELPED--EYFETLKALTKEAVEELGEDKVVVRSNERTLKLIDSRLEEIRDEL 145 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh--hHHHHHHHHHHHHHHHhCCCcEEEEEccccHHHHHHHHHHHHHHh
Confidence 467899999999999999999999999999887 799999999999999999889999999999999999988776543
Q ss_pred HHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcC
Q 031468 83 AQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVS 155 (159)
Q Consensus 83 ~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~ 155 (159)
+ ++++.++. | .+|.|||||+|.+|+|+|||||++||+.+|++++|+|+++|||
T Consensus 146 ~------~~~i~~~~-------~-------~~~~GGvil~s~~g~i~~dnT~e~~l~~~~~~~~~~i~~~LF~ 198 (198)
T PRK03963 146 G------DVEIELGE-------P-------IETIGGVIVETKDGTIRVDNTFEARMERLESELRAKIAKALFG 198 (198)
T ss_pred C------CeEEEECC-------C-------CCccceEEEEeCCCCEEEeCcHHHHHHHHHHHhHHHHHHHhcC
Confidence 2 35666652 1 3789999999999999999999999999999999999999997
No 3
>PF01991 vATP-synt_E: ATP synthase (E/31 kDa) subunit; InterPro: IPR002842 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The V-ATPases (or V1V0-ATPase) and A-ATPases (or A1A0-ATPase) are each composed of two linked complexes: the V1 or A1 complex contains the catalytic core that hydrolyses/synthesizes ATP, and the V0 or A0 complex that forms the membrane-spanning pore. The V- and A-ATPases both contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, , ]. The V- and A-ATPases more closely resemble one another in subunit structure than they do the F-ATPases, although the function of A-ATPases is closer to that of F-ATPases. This entry represents subunit E from the V1 and A1 complexes of V- and A-ATPases, respectively. Subunit E appears to form a tight interaction with subunit G in the F0 complex, which together may act as stators to prevent certain subunits from rotating with the central rotary element, much in the same way as the F0 complex subunit B does in F-ATPases []. In addition to its key role in stator structure, subunit E appears to have a role in mediating interactions with putative regulatory subunits []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046961 proton-transporting ATPase activity, rotational mechanism, 0015991 ATP hydrolysis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain; PDB: 3LG8_A 2KK7_A 4DT0_A 2DM9_A 2DMA_A 3V6I_A 3K5B_A 3J0J_L 2KZ9_A.
Probab=99.95 E-value=4.3e-28 Score=187.94 Aligned_cols=140 Identities=32% Similarity=0.491 Sum_probs=120.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHH
Q 031468 3 LNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEY 82 (159)
Q Consensus 3 ~n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~ 82 (159)
.+++|+.+|.+|+++++++|++++++|.+++.+++.|+++|.+||.+++..+++++++|+|++.|.+++++++..+...|
T Consensus 59 ~~~~r~~~l~~k~~~i~~v~~~~~~~L~~~~~~~~~Y~~~L~~li~~~~~~~~~~~~~v~~~~~D~~~~~~~l~~~~~~~ 138 (198)
T PF01991_consen 59 ELEARRELLEAKQEIIDEVFEEVKEKLKSFSKDPDDYKKFLKKLIEEAAEKLGEGEVIVYVNKKDLELVKEILKRIKKEL 138 (198)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHCTTCCC-THHHHHHHHHHHHHHCCTTSCEEEEECCHHHHCCHCCHCCCCCCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhcCCceEEecccchHHHHHHHHHHHHHHH
Confidence 36789999999999999999999999999999976899999999999999999889999999999999999887766677
Q ss_pred HHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhc
Q 031468 83 AQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLV 154 (159)
Q Consensus 83 ~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF 154 (159)
+...++..+.+..++ .++ .+|+|||+++++||+|+|||||++||+.+++.+.|+|++.||
T Consensus 139 ~~~~~~~~~~~~~~~-~~~-----------~~~~GG~il~~~dg~i~vd~T~e~~l~~~~~~~~~~i~~~LF 198 (198)
T PF01991_consen 139 KSKAGKDSVEVSVDS-DYL-----------IDIIGGFILESEDGKIRVDNTFESRLERLKEEIRPEIAKILF 198 (198)
T ss_dssp CCCSSTTTEEEEE-T---------------BSSSSEEEEECSSSSCEEEEEHHHHHHHCHHHHHHHHHHHHC
T ss_pred HHHhCCCcceeecCc-ccc-----------CCccceEEEEECCCCEEEECCHHHHHHHHHHHhHHHHHHHcC
Confidence 655444234455543 222 278999999999999999999999999999999999999999
No 4
>PRK02292 V-type ATP synthase subunit E; Provisional
Probab=99.95 E-value=1e-26 Score=180.34 Aligned_cols=122 Identities=29% Similarity=0.448 Sum_probs=107.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHH
Q 031468 3 LNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEY 82 (159)
Q Consensus 3 ~n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~ 82 (159)
.+.+|+.+|.+|+++++++|..|+++|.+++.+ .|..+|.+||.++ .+++++|+|+|.|..++++++.++
T Consensus 67 ~~~~rr~~L~~r~~~l~~v~~~a~~kL~~~~~~--~y~~~l~~li~~~----~~~~~~i~~~~~D~~~~~~~~~~~---- 136 (188)
T PRK02292 67 KLEAKRERLNARKEVLEDVRNQVEDEIASLDGD--KREELTKSLLDAA----DADGVRVYSRKDDEDLVKSLLSDY---- 136 (188)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcchh--hHHHHHHHHHHhc----CCCCeEEEEccccHHHHHHHHHhc----
Confidence 478899999999999999999999999999986 7999999999998 467899999999999999987743
Q ss_pred HHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcCC
Q 031468 83 AQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVSQ 156 (159)
Q Consensus 83 ~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~~ 156 (159)
+ .+++ . +. .+|.|||||++++|+|+|||||++||+.+|++++|+|+++|||.
T Consensus 137 ~------~~~~--~------~~--------~~~~GGvil~~~~g~I~~dnT~~~rl~~~~~~~~~~i~~~LF~~ 188 (188)
T PRK02292 137 D------GLEY--A------GN--------IDCLGGVVVESEDGRVRVNNTFDSILEDVWEDNLKEISDRLFGE 188 (188)
T ss_pred c------cCee--C------CC--------CCCCceEEEEecCCceEEeccHHHHHHHHHHHhhHHHHHHhcCC
Confidence 1 1222 1 11 26899999999999999999999999999999999999999984
No 5
>PRK01194 V-type ATP synthase subunit E; Provisional
Probab=99.91 E-value=7.1e-24 Score=164.56 Aligned_cols=114 Identities=16% Similarity=0.338 Sum_probs=99.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHH
Q 031468 5 ASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQ 84 (159)
Q Consensus 5 ~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~ 84 (159)
++|+++|++|+++++++|+.|+++|.++++++ .|+++|++||.+++..+ +++++|+|++.|..++++.
T Consensus 69 e~R~~~L~aree~I~~v~~~a~e~L~~l~~~~-~Y~~~L~~LI~~a~~~l-~~~~~v~~~~~D~~~i~~~---------- 136 (185)
T PRK01194 69 EARSIKREKRREILKDYLDIAYEHLMNITKSK-EYDSILNKMIEVAIKTL-GEDCIIKVSESDKKKINNA---------- 136 (185)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcccCCc-hHHHHHHHHHHHHHHhc-CCCeEEEEcHHhHHHHHhC----------
Confidence 57999999999999999999999999999876 89999999999999985 5789999999999988752
Q ss_pred hhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcCC
Q 031468 85 KLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVSQ 156 (159)
Q Consensus 85 ~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~~ 156 (159)
++++. + .+|.|||||+|.+|+|++||||++++ ++++|+||..||..
T Consensus 137 -------~l~~~-----~----------~~~~GGvil~s~dG~I~ld~~l~~~~----~~~~~~iR~~lf~~ 182 (185)
T PRK01194 137 -------KIKFA-----D----------IDPYGGILAYSRDGKRELDLRLSSIF----ENILEDLKVYFYEN 182 (185)
T ss_pred -------ceeeC-----C----------ccccccEEEEeCCCcEEehhhHHHHH----HHhHHHHHHHHHhh
Confidence 22222 1 27999999999999999999988876 88899999999964
No 6
>COG1390 NtpE Archaeal/vacuolar-type H+-ATPase subunit E [Energy production and conversion]
Probab=99.89 E-value=4.6e-22 Score=155.30 Aligned_cols=127 Identities=31% Similarity=0.528 Sum_probs=111.6
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHH
Q 031468 3 LNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEY 82 (159)
Q Consensus 3 ~n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~ 82 (159)
.+++|+++|++++++++.+|+.+.++|..++++| +|.. |..|+.+++..+.+++++|++++.|..++.+++.+.
T Consensus 68 ~le~r~~~Le~~ee~l~~~~~~~~e~L~~i~~~~-~~~~-l~~ll~~~~~~~~~~~~iV~~~e~d~~~v~~~~~~~---- 141 (194)
T COG1390 68 LLEARRKLLEAKEEILESVFEAVEEKLRNIASDP-EYES-LQELLIEALEKLLGGELVVYLNEKDKALVEQILREL---- 141 (194)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHcCcCCc-chHH-HHHHHHHHHHhcCCCCeEEEeCcccHHHHHHHHhhc----
Confidence 5789999999999999999999999999999998 6666 999999999999999999999999999988877641
Q ss_pred HHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcCC
Q 031468 83 AQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVSQ 156 (159)
Q Consensus 83 ~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~~ 156 (159)
.+...+. + +.+|.|||++++.||++++||||++||+..++.+.|.|++.||+.
T Consensus 142 -------~~~~~~~------~--------~~d~~GGvvv~~~dG~i~~dnt~~sil~~~~e~~~~~i~~~lf~~ 194 (194)
T COG1390 142 -------KIGVELG------E--------GIDIIGGVVVESRDGKIRLDNTFESILERVLEELLPEISEKLFGV 194 (194)
T ss_pred -------ccchhcc------c--------cCCCcceEEEEeCCCceeecCcHHHHHHHHHHHHHHHHHHHHcCC
Confidence 1222222 1 137999999999999999999999999999999999999999984
No 7
>PRK01558 V-type ATP synthase subunit E; Provisional
Probab=99.70 E-value=1e-15 Score=120.00 Aligned_cols=126 Identities=21% Similarity=0.269 Sum_probs=97.0
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHH
Q 031468 4 NASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYA 83 (159)
Q Consensus 4 n~aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~ 83 (159)
...|..+|.+++++++.+.+.+.+.+.+.. +++.|..++..|+.... +++++.|+++++|...+.+.+.. .++
T Consensus 70 l~~r~~ll~~k~~i~~~~~~~~~~~~~~~~-~~e~~~~li~~ll~~~~---~~~~~~I~~~~~D~~~l~~~~~~---~~~ 142 (198)
T PRK01558 70 QAGRDLLISFEKSIKSLFKAALKDEVAEVY-DSNFLRELIIRVVDSWV---KGDKLEIILNESDLSELESILRA---ALG 142 (198)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhc---CCCCeeEEECHHHHHHhHHHHHH---HHH
Confidence 356777888888888766555555556444 45589999999999864 45678999999999999877653 333
Q ss_pred HhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHh
Q 031468 84 QKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQL 153 (159)
Q Consensus 84 ~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~L 153 (159)
...+. + +++.. . ..|.|||+|.+.||++.+||||+++++..++.+.|.++++|
T Consensus 143 ~~l~~-g--i~i~~------~--------~~~~gG~iv~~~dg~i~id~T~ea~~~~l~~~L~~~~~~~l 195 (198)
T PRK01558 143 NKLKK-G--IELKP------F--------KGISKGFKIQQKDGSLYYDFSAEAIADILFSYLNPRFKEVI 195 (198)
T ss_pred HHhcC-C--eEEcc------c--------CCcccceEEEEcCCCeEEeCcHHHHHHHHHHHhcHHHHHHH
Confidence 33321 2 44442 1 37999999999999999999999999999999999999987
No 8
>PRK01005 V-type ATP synthase subunit E; Provisional
Probab=99.53 E-value=2.6e-13 Score=107.09 Aligned_cols=123 Identities=12% Similarity=0.141 Sum_probs=89.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhh-ccChhHHHHHHHHHHHHHHHhhCCC--------cEEEEeccccHHHHHHHH
Q 031468 5 ASRIKVLQAQDDLVSNMMEAASKEVLNV-SRDHNSYKKLLKGLIVQSLLRLKEP--------AVLLRCRKDDHHLVESVL 75 (159)
Q Consensus 5 ~aR~~~L~ar~~~i~~v~~~a~~~L~~~-~~~~~~Y~~~L~~Li~e~~~~l~~~--------~v~v~~~~~D~~~v~~~i 75 (159)
.+|..+|.+++++++.+|..+.+++.+- ..+| +||.+||..-+...... -+...++|++..-. +.
T Consensus 76 ~~R~~~l~aKqevi~~vf~~a~~~lv~~~~~d~----~~l~~lI~~~v~~~~~~~~~~~~~~~i~~~~~~~~~~~~--~~ 149 (207)
T PRK01005 76 AGKRSLESLKQAVENKIFRESLGEWLEHVLTDP----EVSAKLIQALVQAIEAQGISGNLTAYIGKHVSARAVNEL--LG 149 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCH----HHHHHHHHHHHHHHhhcccccccchhhhhcCCHHHHHHH--HH
Confidence 4689999999999999999999998864 3344 66777777655555322 13345566555443 33
Q ss_pred HHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHHhcC
Q 031468 76 ESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQLVS 155 (159)
Q Consensus 76 ~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~LF~ 155 (159)
..+.+.+... + |++.. ..|||+|.+.||++.+|||++++++.+|+.+.|.++.+|||
T Consensus 150 ~~~~~~l~~~----g--v~~~~-----------------~~gG~~v~~~dg~~~vd~t~d~i~~~~~~~l~~~~~~~LF~ 206 (207)
T PRK01005 150 KEVTKKLKEK----G--VSVGS-----------------FVGGAQLKVEEKNWVLDLSSQTLLDLLTRYLQKDFREMIFQ 206 (207)
T ss_pred HHHHHHHHHc----C--eEEec-----------------cCCceEEEecCCeeEEeCcHHHHHHHHHHHhhHHHHHHhcC
Confidence 3323333221 2 44441 26999999999999999999999999999999999999998
Q ss_pred C
Q 031468 156 Q 156 (159)
Q Consensus 156 ~ 156 (159)
.
T Consensus 207 ~ 207 (207)
T PRK01005 207 G 207 (207)
T ss_pred C
Confidence 4
No 9
>TIGR03825 FliH_bacil flagellar assembly protein FliH. This bacillus clade of FliH proteins is not found by the Pfam FliH model pfam02108, but is closely related to the sequences identified by that model. Sequences identified by this model are observed in flagellar operons in an analogous position relative to other flagellar operon genes.
Probab=99.06 E-value=5.9e-09 Score=84.60 Aligned_cols=114 Identities=17% Similarity=0.151 Sum_probs=83.5
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCe
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPE 92 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~ 92 (159)
+.++++=++.-|++=+...... -++.+..|+.+++..+... .++|+|+|.|.+.+......+...++.. ..+.
T Consensus 135 e~el~~La~~iAeKIi~~el~~---~~e~i~~lv~~al~~l~~~~~i~I~v~p~d~~~v~~~~~~l~~~~~~~---~~i~ 208 (255)
T TIGR03825 135 QPLIIELACALAEKVIGVSLAE---DKNAFQALVRQVLSEVREFDEVSIYVHPHWYERVAAQKDELQSILPAC---EHLA 208 (255)
T ss_pred HHHHHHHHHHHHHHHHHHHHcc---CHHHHHHHHHHHHHhccCCCcEEEEECHHHHHHHHHhHHHHHhhcCCC---CceE
Confidence 4455555555555555554321 2346788888998888764 7999999999999998877665555432 2466
Q ss_pred EEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHH
Q 031468 93 IIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIR 150 (159)
Q Consensus 93 v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~ 150 (159)
|..|+ . -..||++|.+.+|. ||+|+++||+.+++.++..+.
T Consensus 209 i~~D~--~-------------l~~GgcvIEt~~G~--iDasldtqLe~l~~~l~~~l~ 249 (255)
T TIGR03825 209 VYPDE--K-------------LPDGGCYVETNFGR--IDASVDTQLEQLKEKLLEALK 249 (255)
T ss_pred EEeCC--C-------------CCCCCeEEEcCCce--EEeeHHHHHHHHHHHHHHHHh
Confidence 76663 1 45699999999998 799999999999998877664
No 10
>PRK06937 type III secretion system protein; Reviewed
Probab=99.00 E-value=1.2e-08 Score=80.21 Aligned_cols=112 Identities=14% Similarity=0.226 Sum_probs=81.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCC
Q 031468 12 QAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHP 90 (159)
Q Consensus 12 ~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~ 90 (159)
...+++++=++.-+++-+..+ .-++++..++.+++..+.+. .++|+++|.|.+.+++.+......+++. +.
T Consensus 90 ~~e~~l~~Lvl~ia~kil~~~-----~~~e~i~~lv~~al~~l~~~~~v~I~V~P~D~~~v~~~~~~~~~~~~~~---~~ 161 (204)
T PRK06937 90 GVEQQMSEVVLEAVRKILNDY-----DDVERTLQVVREALALVSNQKQVVVRVNPDQAAAVREQIAKVLKDFPEV---GY 161 (204)
T ss_pred HHHHHHHHHHHHHHHHHHhcc-----CcHHHHHHHHHHHHHhcccCCeEEEEECHHHHHHHHHHHHHHHHhCCCC---cc
Confidence 345566665666555555543 23578889999999988764 7999999999999998877655544431 13
Q ss_pred CeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHH
Q 031468 91 PEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPE 148 (159)
Q Consensus 91 ~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~ 148 (159)
+.|..|+ . -..||+++++..|. ||+|+++||+.+.+.+...
T Consensus 162 l~i~~D~--~-------------L~~Ggc~iET~~G~--vDasl~tql~~l~~al~~~ 202 (204)
T PRK06937 162 LEVVADA--R-------------LDQGGCILETEVGI--IDASLDGQLEALEQAFHST 202 (204)
T ss_pred EEEEeCC--C-------------CCCCCeEEecCCce--EEccHHHHHHHHHHHHHHH
Confidence 5676663 2 34699999999997 7999999998888776543
No 11
>PRK06669 fliH flagellar assembly protein H; Validated
Probab=98.94 E-value=3e-08 Score=81.38 Aligned_cols=112 Identities=19% Similarity=0.304 Sum_probs=85.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCC
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPP 91 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~ 91 (159)
...++++-++.-|++-|..... ..+.++..++.+++..+.+. .++|+++|.|.++++.....+...+... .++
T Consensus 164 ~e~elv~Lal~iaekvi~~~~~---~~~~~i~~li~~al~~l~~~~~i~I~V~p~d~~~l~~~~~~l~~~l~~~---~~i 237 (281)
T PRK06669 164 SEEEIVELALDIAKKVIKEISE---NSKEIALALVKELLKEVKDATDITIRVNPEDYEYVKEQKDELISLLDNE---EHL 237 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHHhc---cCHHHHHHHHHHHHHHcCcCCcEEEEECHHHHHHHHHhHHHHHHhcCCC---CCe
Confidence 4556677777777766644444 36788899999999988764 7999999999999999888766555432 246
Q ss_pred eEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchH
Q 031468 92 EIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLP 147 (159)
Q Consensus 92 ~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p 147 (159)
.|..|+ . -..||++|.+.+|. ||+|+++||+.+++.++.
T Consensus 238 ~I~~D~--~-------------l~~GgcvIet~~G~--IDasi~tqLe~l~~~L~e 276 (281)
T PRK06669 238 KIYEDD--A-------------ISKGGCVIETDFGN--IDARIDTQLKQLKEKLLE 276 (281)
T ss_pred EEEECC--C-------------CCCCCeEEEcCCCe--eeccHHHHHHHHHHHHHh
Confidence 777763 1 34599999999997 799999999998887654
No 12
>PRK06328 type III secretion system protein; Validated
Probab=98.90 E-value=6.2e-08 Score=77.35 Aligned_cols=113 Identities=16% Similarity=0.194 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCe
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPE 92 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~ 92 (159)
++++++=++.-|++=+..-.. .-++.+..++.+++..+... .++|+|+|.|.+++++..+++...+.+. ..|.
T Consensus 91 e~~lv~Lal~ia~kVi~~el~---~d~e~il~lV~~aL~~l~~~~~v~I~VnP~D~~~v~~~~~~l~~~~~~~---~~~~ 164 (223)
T PRK06328 91 KEALVPLAIASVKKIIGKELE---LHPETIVSIIANSLKELTQHKRIIIHVNPKDLAIVEKSRPELKKIVEYA---DSLI 164 (223)
T ss_pred HHHHHHHHHHHHHHHHHHHHh---hCHHHHHHHHHHHHHhcccCCceEEEECHHHHHHHHHHHHHHHHhccCC---CceE
Confidence 445566666666666654322 12477779999999888654 7999999999999998877666555433 2577
Q ss_pred EEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHH
Q 031468 93 IIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEI 149 (159)
Q Consensus 93 v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I 149 (159)
|..|+ .| -.||++|++..|. ||.|+++||+.+.+.+.-.+
T Consensus 165 I~~D~--~L-------------~~GgCiIET~~G~--VDasle~ql~~l~~al~~~l 204 (223)
T PRK06328 165 ISPKA--DV-------------TPGGCIIETEAGI--INAQLDVQLAALEKAFSTIL 204 (223)
T ss_pred EEeCC--CC-------------CCCCeEEEeCCce--EEecHHHHHHHHHHHHHHHH
Confidence 87774 22 3599999999997 69999999988877665444
No 13
>PRK13386 fliH flagellar assembly protein H; Provisional
Probab=98.76 E-value=1.4e-07 Score=75.94 Aligned_cols=104 Identities=11% Similarity=0.177 Sum_probs=72.7
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCC--CcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCC
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKE--PAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPP 91 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~--~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~ 91 (159)
++.+++-++.-|++-+..-.. .-++.+..++.+++..+.. ..++|+|+|.|.+++++...+. ...|
T Consensus 121 ~~~ll~La~~iA~~vi~~el~---~~p~~il~~v~eaL~~lp~~~~~v~I~vnP~D~~~l~~~~~e~---------~~~~ 188 (236)
T PRK13386 121 RDELLDLVEKVTRQVIRCELT---LQPQQILALVEETLAALPDDPEQLKVHLNPEEFGRLKDLAPEK---------VQAW 188 (236)
T ss_pred HHHHHHHHHHHHHHHHHHHHh---cCHHHHHHHHHHHHHhccccCCCeEEEECHHHHHHHHHhhhcc---------ccCe
Confidence 344555555555544444222 2345677999999999854 4799999999999999776531 1157
Q ss_pred eEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhch
Q 031468 92 EIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKL 146 (159)
Q Consensus 92 ~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~ 146 (159)
++..|+ . -..||++|++..|. ||.|+++||+.+.+.+.
T Consensus 189 ~l~~D~--~-------------l~~GgC~Iet~~g~--iDa~ietRl~~~~~~l~ 226 (236)
T PRK13386 189 GLVADP--S-------------LSAGECRIVTDTSE--ADAGCEHRLDACMDAVK 226 (236)
T ss_pred EEEeCC--C-------------cCCCCEEEEeCCce--EeeCHHHHHHHHHHHHH
Confidence 888774 2 34699999998887 69999999977655443
No 14
>PF02108 FliH: Flagellar assembly protein FliH; InterPro: IPR018035 This entry represents a region found in the flagellar assembly protein FliH, as well as in type III secretion system protein HrpE. Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export []. The sequence of fliH has been deduced and shown to encode a protein of molecular mass of 25,782 Da. Bacterial HrpE proteins are belived to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) [].
Probab=98.73 E-value=3.7e-07 Score=65.68 Aligned_cols=101 Identities=22% Similarity=0.316 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHH-HhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCC
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSL-LRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHP 90 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~-~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~ 90 (159)
.++++++-++.-|++-+..... .-++.+..+|.+++ ...... .++|+++|.|.+.+++.+.+....+ +
T Consensus 25 ~~~~l~~l~~~iae~vi~~~l~---~~~~~i~~~i~~al~~~~~~~~~v~I~v~p~d~~~l~~~~~~~~~~~-------~ 94 (128)
T PF02108_consen 25 LEQELVELALAIAEKVIGRELE---EDPEAILNLIREALQELPRDEEKVTIRVHPDDYEALEELLEDELPEL-------G 94 (128)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh---cCHHHHHHHHHHHHHHhhccCCCeEEEECHHHHHHHHHHHHHHHhhc-------C
Confidence 3566666666666666653322 23467778888888 555444 7999999999999998877432211 4
Q ss_pred CeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHH
Q 031468 91 PEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDV 140 (159)
Q Consensus 91 ~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~ 140 (159)
+++..|+ .| -.||+++++.+|. +|.|+++||+.
T Consensus 95 ~~l~~D~--~l-------------~~G~c~iet~~g~--iD~~i~~ql~~ 127 (128)
T PF02108_consen 95 WELVADP--SL-------------APGDCRIETEDGI--IDASIETQLEA 127 (128)
T ss_pred CEEEecC--CC-------------CCCCEEEEECCee--EEeCHHHHHhc
Confidence 6777774 22 4599999998886 69999999964
No 15
>PRK05687 fliH flagellar assembly protein H; Validated
Probab=98.63 E-value=7.8e-07 Score=71.69 Aligned_cols=107 Identities=24% Similarity=0.308 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhC--CCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCC
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLK--EPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPP 91 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~--~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~ 91 (159)
.+++++-++.-|++-+..... .-++.+..+|.+++..+. .+.++|+|+|.|.+++++.+.. .... . ++
T Consensus 134 e~~Lv~Lal~ia~~vi~~el~---~~~~~il~~v~~al~~lp~~~~~v~i~v~P~D~~~v~~~~~~---~~~~-~---~~ 203 (246)
T PRK05687 134 ESRLVQLALELARQVIGQELK---TDPSAILAAIRELLQALPMFSGKPQLRVNPDDLELVEQLLGA---ELSL-H---GW 203 (246)
T ss_pred HHHHHHHHHHHHHHHHHhhhc---cCHHHHHHHHHHHHHhccccCCCceEEECHHHHHHHHHHHhh---HHHh-C---Ce
Confidence 344555555555555554222 234677789999998874 3579999999999999988763 2221 1 57
Q ss_pred eEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchH
Q 031468 92 EIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLP 147 (159)
Q Consensus 92 ~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p 147 (159)
+|..|+ .| -.||++|++.+|. ||.|+++||+.+.+.+.+
T Consensus 204 ~l~~D~--~l-------------~~Ggc~iet~~g~--vDa~l~~r~~~l~~~l~~ 242 (246)
T PRK05687 204 RLLADP--SL-------------HRGGCRISAEEGD--VDASLETRWQEVCRLLAP 242 (246)
T ss_pred EEEeCC--Cc-------------CCCCeEEEeCCCc--eeccHHHHHHHHHHHHhc
Confidence 888874 22 3599999999998 689999999998887754
No 16
>PRK09098 type III secretion system protein HrpB; Validated
Probab=98.62 E-value=1.6e-06 Score=69.67 Aligned_cols=110 Identities=21% Similarity=0.236 Sum_probs=76.0
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhh--CCCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCC
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRL--KEPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHP 90 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l--~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~ 90 (159)
.++++++=++..+++-+... + +..|-..+.+++..+ +.+.++|+|+|.|.+.++..+......++. ...
T Consensus 111 ~e~~Lv~lv~~~v~kiv~~~--d----~~~ll~~v~~al~~~~~~~~~v~IrV~P~D~~~v~~~~~~~~~~~g~---~~~ 181 (233)
T PRK09098 111 MRERLAEIVAAAVEQIVLGE--D----RAALFARAAQTLERVVDGASYLTVRVHPADLDAARAAFGAAAAAGGR---NVP 181 (233)
T ss_pred HHHHHHHHHHHHHHHHHHhc--C----HHHHHHHHHHHHHHHhccCCcEEEEECHHHHHHHHHHHHHHHHhcCC---Ccc
Confidence 36677777777777666543 2 344556666777554 234799999999999999887765443221 113
Q ss_pred CeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHH
Q 031468 91 PEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPE 148 (159)
Q Consensus 91 ~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~ 148 (159)
+.|..|+ .| -.||+++++..|. ||+|+++||+.+.+.+...
T Consensus 182 l~Iv~Dp--~L-------------~~GgCviET~~G~--IDasl~~ql~~L~~al~~~ 222 (233)
T PRK09098 182 VEVVGDP--RL-------------APGACVCEWDFGV--FDASLDTQLRALRRALARA 222 (233)
T ss_pred eEEEeCC--CC-------------CCCCeEEEeCCCe--EecCHHHHHHHHHHHHHHH
Confidence 5566663 33 3599999999997 6999999998887766543
No 17
>COG1317 FliH Flagellar biosynthesis/type III secretory pathway protein [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=98.61 E-value=1.4e-06 Score=70.04 Aligned_cols=112 Identities=21% Similarity=0.263 Sum_probs=80.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC--cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCC
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP--AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHP 90 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~--~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~ 90 (159)
...++++-+++-|++=|..... .-++.|..++.+++...... .++|+|+|.|.++++....+....+ ++.
T Consensus 115 ~e~qLv~lvl~ia~~Vi~~~~~---~~~~~ll~~v~e~L~~~~~~~~~i~l~VnP~d~e~i~~~~~~~~~~~----~~~- 186 (234)
T COG1317 115 VEKQLVQLVLEIARKVIGKELE---LDPEALLAAVREALEEVPLFAAAITLRVNPDDLEIIRQQLDEELSLL----GWR- 186 (234)
T ss_pred HHHHHHHHHHHHHHHHHhHHHh---cCHHHHHHHHHHHHHhccccccCeEEEECHHHHHHHHHHHHHHHhhc----chh-
Confidence 3555666666666666665544 35678889999998877544 6999999999999998887543322 221
Q ss_pred CeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchHHH
Q 031468 91 PEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEI 149 (159)
Q Consensus 91 ~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I 149 (159)
+.|..|+ . --.||+++++..|. ||-|+++||..+.+.+.+..
T Consensus 187 l~l~~D~--~-------------l~~GgC~IeTe~G~--iDasld~ql~~L~~~~~~~~ 228 (234)
T COG1317 187 LELVADP--A-------------LSPGGCIIETEFGI--IDASLDTQLAALKRALLESL 228 (234)
T ss_pred eeeccCC--C-------------CCCCCeEEEecCcc--ccccHHHHHHHHHHHHHhhh
Confidence 2244442 1 34699999999997 69999999999988887754
No 18
>PRK06032 fliH flagellar assembly protein H; Validated
Probab=98.28 E-value=2.1e-05 Score=61.65 Aligned_cols=109 Identities=12% Similarity=0.066 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHHHHHHHhh-ccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCC
Q 031468 14 QDDLVSNMMEAASKEVLNV-SRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPP 91 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~-~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~ 91 (159)
++++++=++.-|++-+... ..+| ...+..++.+++..+.+. .++|+++|.|.+.+++.+.+........ ..+
T Consensus 86 ~~~lv~La~~iarkvi~~~l~~~p---~a~v~~~v~eal~~l~~~~~v~I~v~P~d~~~l~~~l~~~~~~~~~~---~~~ 159 (199)
T PRK06032 86 ETEAADLALAVARKIAGAALAAEP---LAEITAAVRDCLRHLVATPHLVVRVNDALVEAARERLERLARESGFE---GRL 159 (199)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCc---hhHHHHHHHHHHHHhcCCCcEEEEECHHHHHHHHHHHHHHHHhcCcC---ccE
Confidence 3444444444455444443 3332 224667777777766554 6999999999999999888655443321 135
Q ss_pred eEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 92 EIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 92 ~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
.|..|+ .| -.||++|+..+|+ +|+|+++++.++.+.+
T Consensus 160 ~l~~D~--~L-------------~~G~c~vet~~G~--vd~d~~~~~~~I~~al 196 (199)
T PRK06032 160 VVLADP--DM-------------APGDCRLEWADGG--VVRDRAAIEARIEEAV 196 (199)
T ss_pred EEeeCC--CC-------------CCCCeEEEeCCCe--EecCHHHHHHHHHHHh
Confidence 666663 33 3599999999998 5888888887776543
No 19
>TIGR02499 HrpE_YscL_not type III secretion apparatus protein, HrpE/YscL family. This model is related to Pfam model pfam06188, but is broader. pfam06188 describes HrpE-like proteins, components of bacterial type III secretion systems primarily in bacteria that infect plants. This model includes also the homologous proteins of animal pathogens, such as YscL of Yersinia pestis. This model excludes the related protein FliH of the bacterial flagellar apparatus (see pfam02108)
Probab=98.20 E-value=2e-05 Score=59.33 Aligned_cols=70 Identities=20% Similarity=0.192 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCcc
Q 031468 38 SYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCS 116 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~ 116 (159)
..++++..++.+++..+.+. .++|+|+|.|.+.+++.+.+... .. ++++..|+ . -..
T Consensus 94 ~~~e~l~~lv~~al~~~~~~~~v~I~v~P~d~~~l~~~l~~~~~----~~---~~~i~~D~--~-------------l~~ 151 (166)
T TIGR02499 94 DEPERLVRLLRQLLRAVANQGRLTLRVHPEQLDEVREALAERLA----LE---PWELEPDA--S-------------LAP 151 (166)
T ss_pred CCHHHHHHHHHHHHHhCCCCCceEEEECHHHHHHHHHHHHHHhc----cC---CeEEeeCC--C-------------CCC
Confidence 45678888888888888764 79999999999999988775321 11 24555553 1 457
Q ss_pred ccEEEEecCCcEE
Q 031468 117 GGVVVASRDGKIV 129 (159)
Q Consensus 117 GGviv~s~dg~i~ 129 (159)
||++|++.+|.|.
T Consensus 152 G~c~vet~~G~vd 164 (166)
T TIGR02499 152 GACVLETESGVVD 164 (166)
T ss_pred CCEEEEeCCceee
Confidence 9999999999864
No 20
>TIGR03321 alt_F1F0_F0_B alternate F1F0 ATPase, F0 subunit B. CC and in principle may run in either direction. This model represents the F0 subunit B of this apparent second ATP synthase.
Probab=97.67 E-value=0.0027 Score=51.31 Aligned_cols=109 Identities=13% Similarity=0.174 Sum_probs=66.1
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhh--------------CCCcEEEE-eccccHHHHHHHHHHH
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRL--------------KEPAVLLR-CRKDDHHLVESVLESA 78 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l--------------~~~~v~v~-~~~~D~~~v~~~i~~~ 78 (159)
|.++.+-.+..|.+-|....... ....++...|.+- ..+ .+..++|. ..|=+.+....+...+
T Consensus 122 ~~ei~~la~~~A~kil~~~~d~~-~~~~lid~~i~~l-~~l~~~~~~~l~~~~~~~~~~~~v~sa~~l~~~~~~~i~~~l 199 (246)
T TIGR03321 122 RRRTGAEVFAIARKVLTDLADTD-LEERMVDVFVQRL-RTLDPDEKAALAEALADSGNPVLVRSAFELPEEQREQIRDTI 199 (246)
T ss_pred HHHHHHHHHHHHHHHHHHhcChH-HHHHHHHHHHHHh-hcCCHHHHHHHHHHHhCCCCceEEEecCCCCHHHHHHHHHHH
Confidence 55555666777777777655443 5666776666431 111 11124433 4444455555554444
Q ss_pred HHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 79 KEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 79 ~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
.+.|+. ...+++.+| ++++|||++.. |..++|.|+.++|+.+...+
T Consensus 200 ~~~~~~---~v~~~~~vd----------------p~ligGi~l~~--g~~~id~Si~~~L~~l~~~~ 245 (246)
T TIGR03321 200 RETLGP---EIRLRFQTE----------------PDLIGGIELTA--GGHKLAWSVDDYLESLEEDV 245 (246)
T ss_pred HHHHCC---CeeEEeeeC----------------chhcCceEEEE--CCEEEechHHHHHHHHHhhc
Confidence 444421 113445555 27999999998 88999999999998877653
No 21
>PRK13436 F0F1 ATP synthase subunit delta; Provisional
Probab=97.58 E-value=0.0016 Score=50.14 Aligned_cols=64 Identities=14% Similarity=0.199 Sum_probs=43.4
Q ss_pred EeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHH
Q 031468 62 RCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVV 141 (159)
Q Consensus 62 ~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~ 141 (159)
...|=+.+..+.+...+.+.|.... .++..|| ++++||+++.- |.-++|.|+.+||+.+
T Consensus 115 sA~~Ls~~~~~~i~~~l~~~~g~~v---~l~~~vD----------------pslIGGi~i~~--gd~viD~Sik~~L~~l 173 (179)
T PRK13436 115 TTEPLSEVQISRFESKLSKKLNKKV---HLVNKID----------------PKLIAGIKIKV--DNKVFENSIKSKLKEL 173 (179)
T ss_pred ecCCCCHHHHHHHHHHHHHHHCCeE---EEEeecC----------------HHHcCceEEEE--CCEEeehhHHHHHHHH
Confidence 3556666666666665555443110 1233334 38999999998 8889999999999988
Q ss_pred HHhch
Q 031468 142 FRKKL 146 (159)
Q Consensus 142 ~~~~~ 146 (159)
...+.
T Consensus 174 ~~~l~ 178 (179)
T PRK13436 174 KKQVL 178 (179)
T ss_pred HHHHh
Confidence 87654
No 22
>PRK13430 F0F1 ATP synthase subunit delta; Provisional
Probab=97.42 E-value=0.004 Score=51.11 Aligned_cols=87 Identities=20% Similarity=0.190 Sum_probs=53.6
Q ss_pred HHHHHHHHHHHHHHHhhCCCcEE-EEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCcc
Q 031468 38 SYKKLLKGLIVQSLLRLKEPAVL-LRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCS 116 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~~~~v~-v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~ 116 (159)
.+..++..+.......-+.-.++ ....|=+.+..+.+...+.+.|... -.++..|| ++++
T Consensus 182 ~l~~i~~~f~~l~~~~~~~~~a~VtSA~pLs~~q~~~L~~~L~k~~g~~---V~l~~~VD----------------psLI 242 (271)
T PRK13430 182 SIEEGLDELSNLAAARRGRSVATVTTAVPLSDEQKQRLAAALSRIYGRP---VHLNSEVD----------------PSVL 242 (271)
T ss_pred hHHHHHHHHHHHHHHHcCeeEEEEEecCCCCHHHHHHHHHHHHHHHCCc---eEEEeeEC----------------cccc
Confidence 34455555555444433322232 3344555555555555555555321 13555555 3899
Q ss_pred ccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 117 GGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 117 GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
||++|.- |.-++|+|+.+||+.+...+
T Consensus 243 GGivI~v--Gd~viD~Sv~~rL~~L~~~L 269 (271)
T PRK13430 243 GGMRVQV--GDEVIDGSVAGRLERLRRRL 269 (271)
T ss_pred CcEEEEE--CCEEEehhHHHHHHHHHHHh
Confidence 9999998 88899999999999888765
No 23
>PF06188 HrpE: HrpE/YscL/FliH and V-type ATPase subunit E; InterPro: IPR009335 This family consists of several bacterial HrpE proteins, which are believed to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) []. This family also includes V-type proton ATPase subunit E proteins. This subunit appears to form a tight interaction with subunit G in the F0 complex. Subunits E and G may act together as stators to prevent certain subunits from rotating with the central rotary element []. PF01991 from PFAM also contains V-type ATPase subunit E proteins. There is an evolutionary link between type III secretion systems and membrane-associated proton translocating ATPases [].
Probab=97.31 E-value=0.0066 Score=47.41 Aligned_cols=100 Identities=19% Similarity=0.317 Sum_probs=72.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHHh
Q 031468 6 SRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQK 85 (159)
Q Consensus 6 aR~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~ 85 (159)
.|..+...-.+....++..+.++|..-..++..+..+++.|+.+. .++..++++|.|.+.+.|...+.+. ..
T Consensus 83 ~~e~l~~~l~~~~~~ll~~al~~lL~e~~~~qrv~aLlr~l~~~~---~~~~~~tL~~hP~~~~~V~~~L~~~----~~- 154 (191)
T PF06188_consen 83 QREQLLQQLEEQAEELLSQALERLLDETPDQQRVAALLRQLLASQ---RQESEATLRCHPDQLEEVAAWLAEH----PA- 154 (191)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHcCCchHHHHHHHHHHHHhc---ccccceEEEECHHHHHHHHHHHHhC----CC-
Confidence 445555556666777778777777765555558888888887653 3456899999999999999888742 21
Q ss_pred hCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEe
Q 031468 86 LQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCE 131 (159)
Q Consensus 86 ~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vd 131 (159)
..|++..|. .|+ .|..++++..|.+.+|
T Consensus 155 ---~~w~l~~D~--sl~-------------~~~l~L~t~~G~~~l~ 182 (191)
T PF06188_consen 155 ---LHWQLQADE--SLA-------------PDQLKLETANGEFRLD 182 (191)
T ss_pred ---cceeeccCC--CCC-------------CCceEEEcCCCcEEEC
Confidence 147777774 443 4889999999998776
No 24
>PRK13434 F0F1 ATP synthase subunit delta; Provisional
Probab=97.24 E-value=0.009 Score=46.15 Aligned_cols=31 Identities=23% Similarity=0.358 Sum_probs=28.3
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhch
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKKL 146 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~ 146 (159)
+++||+++.- |..++|.|+.+||+++...+.
T Consensus 144 sLIGG~ii~i--gd~viD~Svk~~L~~l~~~l~ 174 (184)
T PRK13434 144 NLLGGFVVQF--NDLKIEKSIASQLGEIKKAML 174 (184)
T ss_pred HHcCceEEEE--CCEEEeHhHHHHHHHHHHHHH
Confidence 8999999998 888999999999999888774
No 25
>PF06635 NolV: Nodulation protein NolV; InterPro: IPR010586 This family consists of several nodulation protein NolV sequences from different Rhizobium species []. The function of this family is unclear.; GO: 0009877 nodulation
Probab=97.22 E-value=0.013 Score=46.29 Aligned_cols=109 Identities=22% Similarity=0.250 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCC-cEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCC
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEP-AVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPP 91 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~-~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~ 91 (159)
-.+++.+=+++-+++-|..|.. .++|.+.+.+++..+..+ .++|++.|.|.+.+...+..+. .+ .|...+
T Consensus 91 LE~~l~~LVl~~Vr~ILg~fd~-----~ell~r~vr~Al~~~~~~~~v~l~V~P~~vd~l~~~la~~~-~~---~g~~~i 161 (207)
T PF06635_consen 91 LEQELAELVLEIVRKILGEFDP-----DELLVRAVRQALSQIRQGAEVTLRVAPADVDMLRRELAALE-GR---PGRPKI 161 (207)
T ss_pred HHHHHHHHHHHHHHHHHhcCCh-----HHHHHHHHHHHHHHHhcCCeEEEEECHHHHHHHHHHHHhhh-cc---CCCCce
Confidence 3466666677777777776744 467888888888888766 7999999999999998887552 22 222235
Q ss_pred eEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhchH
Q 031468 92 EIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKKLP 147 (159)
Q Consensus 92 ~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p 147 (159)
.|..|+ -| -.|.+++.|.-|. ||-+|++-|+.++..+.|
T Consensus 162 ~I~aDp--~L-------------a~~~Cvlese~G~--VdagL~aQL~ALr~a~~~ 200 (207)
T PF06635_consen 162 RIVADP--RL-------------AAGQCVLESEFGV--VDAGLDAQLRALRLAFGP 200 (207)
T ss_pred eeecCC--CC-------------CCCCeeeecccch--hhccHHHHHHHHHHHhcc
Confidence 555553 34 3488999999998 689999999888877665
No 26
>PRK13428 F0F1 ATP synthase subunit delta; Provisional
Probab=97.20 E-value=0.0076 Score=52.80 Aligned_cols=86 Identities=19% Similarity=0.212 Sum_probs=53.1
Q ss_pred HHHHHHHHHHHHHHhhCCCcE-EEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccc
Q 031468 39 YKKLLKGLIVQSLLRLKEPAV-LLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSG 117 (159)
Q Consensus 39 Y~~~L~~Li~e~~~~l~~~~v-~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~G 117 (159)
..+++.....-....-+.-.+ +....|=+.+..+.+...+.+.|+... .+++.|| ++++|
T Consensus 357 l~~i~~~~~~l~~~~~g~~~a~VtsA~pLs~~q~~~L~~~L~k~~g~~V---~l~~~VD----------------psLiG 417 (445)
T PRK13428 357 AEEAVLFLAELAVARRGEVVAQVSAAAELSDAQRTRLTEVLSRIYGRPV---SVQLHID----------------PELLG 417 (445)
T ss_pred HHHHHHHHHHHHHHHCCeeEEEEEeecCCCHHHHHHHHHHHHHHHCCce---EEEeeeC----------------chhhC
Confidence 344444444433333222222 334556666666666665555554211 2444555 38999
Q ss_pred cEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 118 GVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 118 Gviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
|++|.- |..++|.|+.+||+.+..++
T Consensus 418 GivI~v--Gd~viD~Sv~~rL~~l~~~l 443 (445)
T PRK13428 418 GLSIAV--GDEVIDGTLSSRLAAAEAQL 443 (445)
T ss_pred ceEEEE--CCEEeehhHHHHHHHHHhhC
Confidence 999998 88999999999999887664
No 27
>PRK13441 F0F1 ATP synthase subunit delta; Provisional
Probab=96.57 E-value=0.06 Score=41.32 Aligned_cols=31 Identities=29% Similarity=0.274 Sum_probs=27.8
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhch
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKKL 146 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~ 146 (159)
+++||+++.- |.-++|.|+.++|+.+...++
T Consensus 147 sliGG~~i~i--g~~~~D~Sik~~L~~l~~~l~ 177 (180)
T PRK13441 147 SLIAGAVVEF--EGKRLDVTVQGRLKKIAREVL 177 (180)
T ss_pred HHhCcEEEEE--CCEEEeHhHHHHHHHHHHHHh
Confidence 7899999998 778899999999999888774
No 28
>COG0712 AtpH F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]
Probab=96.55 E-value=0.054 Score=41.87 Aligned_cols=30 Identities=20% Similarity=0.411 Sum_probs=26.7
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
+++||+++.. |.-++|.|+.++|+++...+
T Consensus 148 sliGG~iI~v--gd~viD~Svr~~L~~l~~~l 177 (178)
T COG0712 148 SLIGGLIIKV--GDEVIDGSVRGKLKRLAKAL 177 (178)
T ss_pred HHhCceEEEE--CCEEEechHHHHHHHHHHhc
Confidence 8999999998 88999999999998876654
No 29
>PRK05758 F0F1 ATP synthase subunit delta; Validated
Probab=96.14 E-value=0.18 Score=38.38 Aligned_cols=30 Identities=23% Similarity=0.412 Sum_probs=26.4
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
+.+||+++.- |...+|.|+.++|+...+.+
T Consensus 146 ~ligG~~i~~--~~~~~d~Si~~~L~~l~~~l 175 (177)
T PRK05758 146 SLIGGVIIKV--GDRVIDGSVRGKLERLKDAL 175 (177)
T ss_pred HHhCceEEEE--CCEEeehhHHHHHHHHHHHh
Confidence 7899999998 67889999999998887765
No 30
>TIGR01145 ATP_synt_delta ATP synthase, F1 delta subunit. This model describes the ATP synthase delta subunit in bacteria, mitochondria, and chloroplasts. It is sometimes called OSCP for Oligomycin Sensitivity Conferring Protein. F1/F0-ATP synthase is a multisubunit, membrane associated enzyme found in bacteria and organelles of higher eukaryotes, namely, mitochondria and chloroplast. This enzyme is principally involved in the synthesis of ATP from ADP and inorganic phosphate by coupling the energy derived from the proton electrochemical gradient across the biological membrane. A brief description of this multisubunit enzyme complex: F1 and F0 represent two major clusters of subunits. Delta subunit belongs to the F1 cluster or sector and functionally implicated in the overall stability of the complex. Expression of truncated forms of this subunit results in low ATPase activity.
Probab=95.96 E-value=0.22 Score=37.78 Aligned_cols=29 Identities=24% Similarity=0.465 Sum_probs=25.3
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHh
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRK 144 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~ 144 (159)
+.+||+++.. |...+|.|+.++|+.+...
T Consensus 143 ~ligGi~i~~--~~~~iD~Si~~~L~~l~~~ 171 (172)
T TIGR01145 143 DLIGGVIIRI--GDRVIDGSVRGQLKRLSRQ 171 (172)
T ss_pred HHhCceEEEE--CCEEEehhHHHHHHHHHhh
Confidence 7899999998 7788999999999887654
No 31
>PRK13429 F0F1 ATP synthase subunit delta; Provisional
Probab=95.66 E-value=0.35 Score=36.90 Aligned_cols=30 Identities=30% Similarity=0.369 Sum_probs=26.4
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
+.+||+++.- |.-.+|.|+.++|+.+.+.+
T Consensus 148 sligG~~i~~--~~~~iD~Si~~~L~~l~~~l 177 (181)
T PRK13429 148 SLIGGVVVKI--GDKVLDASVRTQLRRLKETL 177 (181)
T ss_pred hhhCceEEEE--CCEEEehhHHHHHHHHHHHH
Confidence 7899999998 66889999999998887765
No 32
>CHL00119 atpD ATP synthase CF1 delta subunit; Validated
Probab=94.30 E-value=0.79 Score=35.22 Aligned_cols=31 Identities=19% Similarity=0.309 Sum_probs=26.4
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhch
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKKL 146 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~ 146 (159)
+.+||+++.- |..++|.|+.++|+.....+.
T Consensus 150 ~ligGi~i~~--g~~~~D~Si~~~L~~l~~~l~ 180 (184)
T CHL00119 150 SLIGGFLIKI--GSKVIDTSIKGQLKQLASHLD 180 (184)
T ss_pred HHhCcEEEEE--CCEEEeHhHHHHHHHHHHHHH
Confidence 7899999998 778899999999987776553
No 33
>PRK08474 F0F1 ATP synthase subunit delta; Validated
Probab=92.68 E-value=3 Score=31.80 Aligned_cols=32 Identities=19% Similarity=0.132 Sum_probs=23.9
Q ss_pred cccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHH
Q 031468 116 SGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRK 151 (159)
Q Consensus 116 ~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~ 151 (159)
+||+++.. |..++|.| ..|+.+..++..-|-+
T Consensus 143 IGG~ii~i--gd~v~D~s--~~l~~~~~~~~~~~~~ 174 (176)
T PRK08474 143 YDGIKVEV--DDLGVEVS--FSKDRLKNQLIEYILK 174 (176)
T ss_pred CCCEEEEE--CCEEEEee--eeHHHHHHHHHHHHHh
Confidence 89999998 88889984 5677776666555443
No 34
>PF00213 OSCP: ATP synthase delta (OSCP) subunit; InterPro: IPR000711 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. F-ATPases (also known as F1F0-ATPase, or H(+)-transporting two-sector ATPase) (3.6.3.14 from EC) are composed of two linked complexes: the F1 ATPase complex is the catalytic core and is composed of 5 subunits (alpha, beta, gamma, delta, epsilon), while the F0 ATPase complex is the membrane-embedded proton channel that is composed of at least 3 subunits (A-C), nine in mitochondria (A-G, F6, F8). Both the F1 and F0 complexes are rotary motors that are coupled back-to-back. In the F1 complex, the central gamma subunit forms the rotor inside the cylinder made of the alpha(3)beta(3) subunits, while in the F0 complex, the ring-shaped C subunits forms the rotor. The two rotors rotate in opposite directions, but the F0 rotor is usually stronger, using the force from the proton gradient to push the F1 rotor in reverse in order to drive ATP synthesis []. These ATPases can also work in reverse to hydrolyse ATP to create a proton gradient. This family represents subunits called delta in bacterial and chloroplast ATPase, or OSCP (oligomycin sensitivity conferral protein) in mitochondrial ATPase (note that in mitochondria there is a different delta subunit, IPR001469 from INTERPRO). The OSCP/delta subunit appears to be part of the peripheral stalk that holds the F1 complex alpha3beta3 catalytic core stationary against the torque of the rotating central stalk, and links subunit A of the F0 complex with the F1 complex. In mitochondria, the peripheral stalk consists of OSCP, as well as F0 components F6, B and D. In bacteria and chloroplasts the peripheral stalks have different subunit compositions: delta and two copies of F0 component B (bacteria), or delta and F0 components B and B' (chloroplasts) [, ]. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0046933 hydrogen ion transporting ATP synthase activity, rotational mechanism, 0015986 ATP synthesis coupled proton transport; PDB: 2A7U_B 1ABV_A 2WSS_S 2BO5_A 2JMX_A.
Probab=91.16 E-value=0.017 Score=43.67 Aligned_cols=80 Identities=20% Similarity=0.292 Sum_probs=32.6
Q ss_pred EEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCC-----------------CCCCCCCccccEEEEe
Q 031468 61 LRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGH-----------------HNAHGPSCSGGVVVAS 123 (159)
Q Consensus 61 v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~-----------------~~~~~~~~~GGviv~s 123 (159)
+.+...-..++.+++.++...+....+. ..++|-...+|.++... ....|++++||+++.-
T Consensus 75 ~l~~~~r~~~l~~i~~~~~~~~~~~~~~--~~~~V~sA~~l~~~q~~~l~~~l~~~~~~~~v~~~~~vD~sLigG~~i~~ 152 (172)
T PF00213_consen 75 LLIDNNRLSLLPEILEEFEELVNEHNGI--VEATVTSAFPLSEEQKKKLEKKLKKKYGKKKVELNYKVDPSLIGGFIIEV 152 (172)
T ss_dssp HHCCTT-CCCHHHHHHHHHHHHHHHCCT--S-B-SSS-B----SSSTTTTTTCCCTTTT---------------------
T ss_pred HHHhcCCcccHHHHHHHHHHHHHHHcCe--EEEEEEEecCCCHHHHHHHHHHHHHHHCCCeeeEEEEEccccCcEEEEEE
Confidence 4455556667777777777766665553 33334333444444221 1224578999999998
Q ss_pred cCCcEEEeccHHHHHHHHHHh
Q 031468 124 RDGKIVCENTLDARLDVVFRK 144 (159)
Q Consensus 124 ~dg~i~vdnTle~RL~~~~~~ 144 (159)
|..++|.|+.+||+.+..+
T Consensus 153 --~~~~iD~Sv~~~L~~l~~~ 171 (172)
T PF00213_consen 153 --GDKVIDASVKSRLEQLKKE 171 (172)
T ss_dssp ------TTTTTTTTTTTT-TT
T ss_pred --CCEEEehhHHHHHHHHHhc
Confidence 8888999999999776654
No 35
>KOG1662 consensus Mitochondrial F1F0-ATP synthase, subunit OSCP/ATP5 [Energy production and conversion]
Probab=89.70 E-value=1 Score=35.52 Aligned_cols=29 Identities=28% Similarity=0.526 Sum_probs=25.1
Q ss_pred CCccccEEEEecCCcEEEeccHHHHHHHHHH
Q 031468 113 PSCSGGVVVASRDGKIVCENTLDARLDVVFR 143 (159)
Q Consensus 113 ~~~~GGviv~s~dg~i~vdnTle~RL~~~~~ 143 (159)
++++||+||+. |.-.||-++.+|++.+-.
T Consensus 176 PSI~GGliVei--GdK~vDmSI~tr~q~l~~ 204 (210)
T KOG1662|consen 176 PSIIGGLIVEI--GDKYVDMSIKTRLQKLNK 204 (210)
T ss_pred hhhhcceEEEE--cCeeEeeeHHHHHHHHHH
Confidence 38999999988 778899999999977654
No 36
>PRK14474 F0F1 ATP synthase subunit B; Provisional
Probab=86.01 E-value=17 Score=29.46 Aligned_cols=108 Identities=14% Similarity=0.126 Sum_probs=61.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhh-------------CCCcEEEEe----ccccHHHHHHHH
Q 031468 13 AQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRL-------------KEPAVLLRC----RKDDHHLVESVL 75 (159)
Q Consensus 13 ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l-------------~~~~v~v~~----~~~D~~~v~~~i 75 (159)
.+.++.+-++.-|.+-|.+..+.. ....++..+|.+- ..+ ++..++|+. .|.+...++..+
T Consensus 121 L~~~v~~la~~~A~kiL~~~~d~~-~~~~lid~~i~~l-~~l~~~~r~~l~~~~~~~~~~~i~ta~~l~~~~~~~~~~~l 198 (250)
T PRK14474 121 LQQQTGQQMVKIIRAALADLANAT-LEQQIVGIFIARL-EHLSEAERQALANSNTTPEMLRIRTSFELSQDLRAQILESL 198 (250)
T ss_pred HHHHHHHHHHHHHHHHHHhhcCHH-HHHHHHHHHHHHh-cccCHHHHHHHHhhhcCCCCeEEEeCCCCCHHHHHHHHHHH
Confidence 366677777777888888766543 5666666666422 112 112344443 233344444443
Q ss_pred HHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCCcEEEeccHHHHHHHHHHhc
Q 031468 76 ESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDGKIVCENTLDARLDVVFRKK 145 (159)
Q Consensus 76 ~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~ 145 (159)
.+. ..|. ++.+.+.. + ++.+.|+.+.. |+-.|.+|+++-|+...+.+
T Consensus 199 ~~~------~~~~-~~~~~f~~------~--------p~li~Giel~~--~~~~i~ws~~~yl~~l~~~~ 245 (250)
T PRK14474 199 HQT------HLIP-GTDIHFVT------S--------PELICGIELKT--EGYKIAWTLAEYLDALESQL 245 (250)
T ss_pred HHH------hcCC-CCceeeec------C--------cccccCeEEec--CCceEeccHHHHHHHHHHHH
Confidence 320 1221 23333331 1 27899999998 66678999999997665443
No 37
>PF04716 ETC_C1_NDUFA5: ETC complex I subunit conserved region; InterPro: IPR006806 This is a family of eukaryotic NADH-ubiquinone oxidoreductase subunits (1.6.5.3 from EC) (1.6.99.3 from EC) from complex I of the electron transport chain initially identified in Neurospora crassa as a 29.9 kDa protein. The conserved region is found at the N terminus of the member proteins [].; GO: 0016651 oxidoreductase activity, acting on NADH or NADPH, 0022904 respiratory electron transport chain, 0005743 mitochondrial inner membrane
Probab=55.88 E-value=48 Score=20.73 Aligned_cols=49 Identities=14% Similarity=0.299 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHH
Q 031468 17 LVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESV 74 (159)
Q Consensus 17 ~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~ 74 (159)
.+..++....+.|..++.+. .|+.....++.+=+..+.. ..|.+.+++-
T Consensus 6 ~L~~lY~~~L~~L~~~P~~a-~YR~~tE~it~~Rl~iv~~--------~~d~~~iE~~ 54 (57)
T PF04716_consen 6 ALISLYNKTLKALKKIPEDA-AYRQYTEAITKHRLKIVEE--------EEDIEKIEKK 54 (57)
T ss_pred HHHHHHHHHHHHHHhCCCcc-HHHHHHHHHHHHHHHHHHc--------cccHHHHHHH
Confidence 46678899999999999987 9999999999998877654 3555555543
No 38
>COG3882 FkbH Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=50.14 E-value=44 Score=30.23 Aligned_cols=39 Identities=21% Similarity=0.245 Sum_probs=33.1
Q ss_pred CccccEEEEecCCcEEEeccHHHHHHHHHHhchHHHHHH
Q 031468 114 SCSGGVVVASRDGKIVCENTLDARLDVVFRKKLPEIRKQ 152 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle~RL~~~~~~~~p~I~~~ 152 (159)
..|||||-+..=.+|.+-||.+.-.-..+++....+++.
T Consensus 232 TLWGGVIGedGv~GI~Ls~~~~G~~fk~fQ~~Ik~l~kq 270 (574)
T COG3882 232 TLWGGVIGEDGVDGIRLSNSAEGEAFKTFQNFIKGLKKQ 270 (574)
T ss_pred cccccccccccccceeecCCCCchhHHHHHHHHHHHHhc
Confidence 569999999886679999999998888888888777653
No 39
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=45.96 E-value=57 Score=20.92 Aligned_cols=14 Identities=36% Similarity=0.674 Sum_probs=11.0
Q ss_pred CCccccEEEEecCCcE
Q 031468 113 PSCSGGVVVASRDGKI 128 (159)
Q Consensus 113 ~~~~GGviv~s~dg~i 128 (159)
....||+|+++ |+.
T Consensus 34 ~~~~GGvV~eD--gR~ 47 (62)
T PF15513_consen 34 DRLTGGVVMED--GRH 47 (62)
T ss_pred CeEeccEEEeC--CCE
Confidence 36889999995 764
No 40
>PHA03065 Hypothetical protein; Provisional
Probab=41.70 E-value=2.5e+02 Score=24.86 Aligned_cols=54 Identities=31% Similarity=0.331 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecC
Q 031468 41 KLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDH 97 (159)
Q Consensus 41 ~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~ 97 (159)
+-|+.++.+++..++++--+++|.--|.+.+ +...+++.+. ..|.=++=++.|+
T Consensus 144 ~nlk~~l~~~L~~~~~~v~I~yCdgvDAEfv--MC~~ak~~a~-~~g~WPl~iStDQ 197 (438)
T PHA03065 144 NNLKRLLESALARLGENVEIVYCDGVDAEFV--MCARAKELAA-TTGEWPLLISTDQ 197 (438)
T ss_pred hhHHHHHHHHHHhccCCceEEEECCcchhHH--HHHHHHHHHh-hcCCCceEEeccC
Confidence 4578899999999987755799999999987 4455554443 3442133344443
No 41
>PF14615 Rsa3: Ribosome-assembly protein 3
Probab=41.67 E-value=62 Score=19.49 Aligned_cols=38 Identities=5% Similarity=0.194 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHH
Q 031468 14 QDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLL 52 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~ 52 (159)
+..+++.+..+--+.|.++++.| ++.+--..++..++.
T Consensus 3 ~~~yl~~~t~efgdDLd~lR~~~-dF~~~sl~~Li~aL~ 40 (47)
T PF14615_consen 3 RNFYLQRLTDEFGDDLDELRKAP-DFTDKSLPLLIDALQ 40 (47)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCC-CCCchhHHHHHHHHH
Confidence 67889999999999999999988 566555555555554
No 42
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=39.06 E-value=81 Score=18.44 Aligned_cols=15 Identities=7% Similarity=0.386 Sum_probs=5.9
Q ss_pred HHHHHHHHHHHHHHH
Q 031468 6 SRIKVLQAQDDLVSN 20 (159)
Q Consensus 6 aR~~~L~ar~~~i~~ 20 (159)
.|+++-+.++++|+.
T Consensus 16 vrkEl~K~K~EIIeA 30 (40)
T PF08776_consen 16 VRKELQKVKEEIIEA 30 (40)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 333343444444433
No 43
>PF14164 YqzH: YqzH-like protein
Probab=38.99 E-value=54 Score=21.20 Aligned_cols=37 Identities=11% Similarity=0.198 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHH
Q 031468 40 KKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLE 76 (159)
Q Consensus 40 ~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~ 76 (159)
++|+.++|.+++.+.+.+.-..-+++.|.+-+...+.
T Consensus 3 ek~I~Kmi~~~l~QYg~d~~~~pls~~E~~~L~~~i~ 39 (64)
T PF14164_consen 3 EKLIEKMIINCLRQYGYDVECMPLSDEEWEELCKHIQ 39 (64)
T ss_pred HHHHHHHHHHHHHHhCCcccCCCCCHHHHHHHHHHHH
Confidence 4688889999998887664445566666665554444
No 44
>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]
Probab=38.25 E-value=58 Score=29.51 Aligned_cols=15 Identities=33% Similarity=0.835 Sum_probs=12.0
Q ss_pred cccEEEEecCCcEEE
Q 031468 116 SGGVVVASRDGKIVC 130 (159)
Q Consensus 116 ~GGviv~s~dg~i~v 130 (159)
-||||+.|+|.++++
T Consensus 751 ~GgVi~VsHDeRLi~ 765 (807)
T KOG0066|consen 751 NGGVIMVSHDERLIV 765 (807)
T ss_pred cCcEEEEecccceee
Confidence 488888888888764
No 45
>PF14676 FANCI_S2: FANCI solenoid 2; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=36.29 E-value=1.2e+02 Score=22.89 Aligned_cols=48 Identities=19% Similarity=0.350 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccCh-hHHHHHHHHHHHHHHHhhCC
Q 031468 9 KVLQAQDDLVSNMMEAASKEVLNVSRDH-NSYKKLLKGLIVQSLLRLKE 56 (159)
Q Consensus 9 ~~L~ar~~~i~~v~~~a~~~L~~~~~~~-~~Y~~~L~~Li~e~~~~l~~ 56 (159)
+..+.+....+++++...++|..-...+ ..|-++|..++...-..+.+
T Consensus 44 ~~fk~h~~~r~~Ile~l~~rI~~~s~~~~~~~idlL~~lv~~~p~~vle 92 (158)
T PF14676_consen 44 ELFKVHEMIRSEILEQLLNRIVTKSSSPSSQYIDLLSELVRKAPLTVLE 92 (158)
T ss_dssp HHHHH-GGGHHHHHHHHHHHHHH--SS--HHHHHHHHHHHHH-HHHHS-
T ss_pred HHHHHhHHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHChHHHHH
Confidence 4556777888889999999999887763 48999999999988776654
No 46
>PHA03081 putative metalloprotease; Provisional
Probab=35.65 E-value=3.5e+02 Score=24.71 Aligned_cols=80 Identities=11% Similarity=0.189 Sum_probs=47.2
Q ss_pred HHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEE
Q 031468 43 LKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVA 122 (159)
Q Consensus 43 L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~ 122 (159)
+..++..=+..+.+|.++|-++.=+...+.-+-. -|+.+- .+-.++. . +...++||=+|.
T Consensus 151 i~~~L~~RM~~I~GpniVIFVk~ln~~~l~lL~~----TFGtLP---~~P~~Ip-----------~--~~~~~i~gKiVM 210 (595)
T PHA03081 151 VRDMLSNRMHRISGPNIVIFVKELNPNTLSLLNN----TFGTLP---SCPETIP-----------P--PILVSIGGKIVM 210 (595)
T ss_pred HHHHHHHHHHhhcCCcEEEEEeccCHHHHHHHHH----hcCCCC---CCccccC-----------C--CCccCcCCeEEE
Confidence 4455666677788999999998777665543322 222110 1222221 1 123566777776
Q ss_pred ecC----CcEEEeccHHHHHHHHH
Q 031468 123 SRD----GKIVCENTLDARLDVVF 142 (159)
Q Consensus 123 s~d----g~i~vdnTle~RL~~~~ 142 (159)
-+. =-|.|+||++..|..++
T Consensus 211 mPsPFYTvmv~V~~tl~NiLai~c 234 (595)
T PHA03081 211 MPSPFYTVMVRVDPTLDNILAILC 234 (595)
T ss_pred ecCCceEEEEEcCccHHHHHHHHH
Confidence 553 35789999999886543
No 47
>PRK01379 cyaY frataxin-like protein; Provisional
Probab=35.61 E-value=1.2e+02 Score=21.30 Aligned_cols=18 Identities=11% Similarity=0.207 Sum_probs=9.4
Q ss_pred HHHHHHHHHHHHHHHhhC
Q 031468 38 SYKKLLKGLIVQSLLRLK 55 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~ 55 (159)
+|-.+-..++..-...|+
T Consensus 5 ef~~lad~~L~~ie~~ie 22 (103)
T PRK01379 5 EFSKIAETTIAYIADKIE 22 (103)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 555555555555444443
No 48
>PF03927 NapD: NapD protein; InterPro: IPR005623 This entry represents NapD, the twin-arginine signal-peptide-binding chaperone for NapA, functioning as an assembly protein for the periplasmic nitrate reductase NapABC. The periplasmic NapABC enzyme likely functions during growth in nitrate-limited environments [].; PDB: 2JSX_A 2PQ4_A.
Probab=31.62 E-value=1.3e+02 Score=19.75 Aligned_cols=19 Identities=16% Similarity=0.309 Sum_probs=14.4
Q ss_pred cEEEEeccccHHHHHHHHH
Q 031468 58 AVLLRCRKDDHHLVESVLE 76 (159)
Q Consensus 58 ~v~v~~~~~D~~~v~~~i~ 76 (159)
.++|+|+|...+-+...+.
T Consensus 7 s~vV~~~p~~~~~v~~~l~ 25 (79)
T PF03927_consen 7 SLVVHARPERLEEVAEALA 25 (79)
T ss_dssp EEEEEE-CCCHHHHHHHHC
T ss_pred EEEEEECchhHHHHHHHHH
Confidence 4789999999888876655
No 49
>PF02697 DUF217: Uncharacterized ACR, COG1753; InterPro: IPR003847 This entry is represented by Natrialba phage PhiCh1, Orf96. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=30.88 E-value=1.6e+02 Score=19.27 Aligned_cols=55 Identities=15% Similarity=0.378 Sum_probs=34.5
Q ss_pred HHHHHHHHhhccChhHHHHHHHHHHH-----HHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHH
Q 031468 23 EAASKEVLNVSRDHNSYKKLLKGLIV-----QSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEY 82 (159)
Q Consensus 23 ~~a~~~L~~~~~~~~~Y~~~L~~Li~-----e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~ 82 (159)
++|.++|..+-.+...|.+++..||. ..+..+-+ . .+..|.+-+.+.+.+..+++
T Consensus 8 devY~rL~~~K~~~eSFSdvI~rli~~~~~~~~l~~~~g---~--l~deea~~~~~~i~e~r~~~ 67 (71)
T PF02697_consen 8 DEVYERLKKLKREDESFSDVIERLIEKEKKRRDLMDYFG---I--LSDEEADEMEKDIKEEREEF 67 (71)
T ss_pred HHHHHHHHHHhcCCCCHHHHHHHHHhcccchhHHHHHhc---c--CChhhHHHHHHHHHHHHHHH
Confidence 57888999887444489999999998 33322221 1 24455556666666555444
No 50
>PF10946 DUF2625: Protein of unknown function DUF2625; InterPro: IPR021239 Some members in this family of proteins are annotated as ybfG however currently no function is known.
Probab=29.86 E-value=39 Score=26.90 Aligned_cols=32 Identities=16% Similarity=0.097 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHH
Q 031468 39 YKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLES 77 (159)
Q Consensus 39 Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~ 77 (159)
=-.++...+.+| ..-|.+-|.|.+..+..+.+
T Consensus 11 aW~~v~ew~~~a-------~n~~evLp~d~~~a~~~L~~ 42 (208)
T PF10946_consen 11 AWPLVQEWLKEA-------KNPVEVLPRDPERAEAVLYQ 42 (208)
T ss_pred HHHHHHHHHHhC-------CCCEEECCCCHHHHHHHHHH
Confidence 344555555554 22456679998888777664
No 51
>PF08597 eIF3_subunit: Translation initiation factor eIF3 subunit; InterPro: IPR013906 This shows protein subunits of the eukaryotic translation initiation factor 3 (eIF3). In yeast it is called Hcr1. The Saccharomyces cerevisiae (Baker's yeast) protein Q05775 from SWISSPROT has been shown to be required for processing of 20S pre-rRNA and binds to 18S rRNA and eIF3 subunits Rpg1p and Prt1p []. ; PDB: 3BPJ_D 2KRB_B.
Probab=28.78 E-value=1.1e+02 Score=24.42 Aligned_cols=34 Identities=26% Similarity=0.355 Sum_probs=26.5
Q ss_pred HHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhC
Q 031468 21 MMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLK 55 (159)
Q Consensus 21 v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~ 55 (159)
+-..+..+|..+..++ .|..||..||...+..|.
T Consensus 146 ~~~~l~~kl~~~~ks~-~y~~fl~~l~r~l~~~L~ 179 (245)
T PF08597_consen 146 FAEALAKKLTSFEKSP-HYPSFLKELIRDLCKNLT 179 (245)
T ss_dssp HHHHHHHHHGGGTTST-THHHHHHHHHHHHHTTS-
T ss_pred HHHHHHHHHHcccChH-HHHHHHHHHHHHHHhcCC
Confidence 3445566788888887 999999999999987664
No 52
>PF09561 RE_HpaII: HpaII restriction endonuclease; InterPro: IPR019062 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This family includes HpaII, which recognises the double-stranded sequence CCGG and cleaves after C-1.
Probab=27.84 E-value=50 Score=28.41 Aligned_cols=22 Identities=27% Similarity=0.768 Sum_probs=18.7
Q ss_pred CccccEEEEecCCcEEEeccHH
Q 031468 114 SCSGGVVVASRDGKIVCENTLD 135 (159)
Q Consensus 114 ~~~GGviv~s~dg~i~vdnTle 135 (159)
+..||.+|...||.|+|---++
T Consensus 290 ~a~gGyivV~~dGevlcYHiy~ 311 (355)
T PF09561_consen 290 DATGGYIVVKEDGEVLCYHIYN 311 (355)
T ss_pred cccceEEEEeCCCCEEEEEehh
Confidence 5789999999999999986443
No 53
>PF07960 CBP4: CBP4; InterPro: IPR012420 The CBP4 gene in Saccharomyces cerevisiae is essential for the expression and activity of ubiquinol-cytochrome c reductase [, ]. This family appears to be fungal specific.
Probab=27.67 E-value=47 Score=24.43 Aligned_cols=46 Identities=13% Similarity=0.252 Sum_probs=38.5
Q ss_pred HHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHH
Q 031468 38 SYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYA 83 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~ 83 (159)
.+..+++-++.-|+..++++-++-++.|.|.++...+-+++...|-
T Consensus 4 ~w~~W~K~~~~G~~ii~~G~~l~~y~tPTeEeL~~r~sPELrkr~~ 49 (128)
T PF07960_consen 4 NWRRWAKMLVAGAVIIGGGPALVKYTTPTEEELFKRYSPELRKRYL 49 (128)
T ss_pred hHHHHHHHHHhcceeEeechHHheecCCCHHHHHHhcCHHHHHHHH
Confidence 5677888888888888887788899999999999998887776664
No 54
>PF03410 Peptidase_M44: Protein G1; InterPro: IPR005072 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Metalloproteases are the most diverse of the four main types of protease, with more than 50 families identified to date. In these enzymes, a divalent cation, usually zinc, activates the water molecule. The metal ion is held in place by amino acid ligands, usually three in number. The known metal ligands are His, Glu, Asp or Lys and at least one other residue is required for catalysis, which may play an electrophillic role. Of the known metalloproteases, around half contain an HEXXH motif, which has been shown in crystallographic studies to form part of the metal-binding site []. The HEXXH motif is relatively common, but can be more stringently defined for metalloproteases as 'abXHEbbHbc', where 'a' is most often valine or threonine and forms part of the S1' subsite in thermolysin and neprilysin, 'b' is an uncharged residue, and 'c' a hydrophobic residue. Proline is never found in this site, possibly because it would break the helical structure adopted by this motif in metalloproteases []. This group of metallopeptidases belong to MEROPS peptidase family M44 (clan ME). The active site residues for members of this family and family M16 occur in the motif HXXEHProtein. The type example is the vaccinia virus-type metalloendopeptidase G1 from vaccinia virus, it is a metalloendopeptidase expressed by many Poxviridae which appears to play a role in the maturation of viral proteins.; GO: 0004222 metalloendopeptidase activity, 0008270 zinc ion binding, 0019067 viral assembly, maturation, egress, and release
Probab=27.59 E-value=4.8e+02 Score=23.82 Aligned_cols=79 Identities=15% Similarity=0.303 Sum_probs=46.9
Q ss_pred HHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEE
Q 031468 43 LKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVA 122 (159)
Q Consensus 43 L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~ 122 (159)
+..++..-+..+.+|.++|-+++=+...+.-+-. -|+.+- .+-.++. .. ...++||=+|.
T Consensus 151 i~~mL~~RM~~I~GpniVIFVk~l~~~~l~lL~~----TFGtLP---~cP~~Ip-----------~~--~~~~~~gKivM 210 (590)
T PF03410_consen 151 IRNMLSNRMHRIIGPNIVIFVKELNPNILSLLSN----TFGTLP---SCPLTIP-----------PN--AFSSIGGKIVM 210 (590)
T ss_pred HHHHHHHHHHhhcCCcEEEEEeccCHHHHHHHHH----hcCCCC---CCccccc-----------Cc--cccCCCCcEEE
Confidence 3455566677788999999998877766643322 222110 1222222 11 12567777766
Q ss_pred ecC----CcEEEeccHHHHHHHH
Q 031468 123 SRD----GKIVCENTLDARLDVV 141 (159)
Q Consensus 123 s~d----g~i~vdnTle~RL~~~ 141 (159)
-+. =-|.|++|++..|..+
T Consensus 211 mPsPFYTvmv~V~~tl~NiLai~ 233 (590)
T PF03410_consen 211 MPSPFYTVMVRVDNTLDNILAIM 233 (590)
T ss_pred ecCCceEEEEEcCccHHHHHHHH
Confidence 553 3578999999988654
No 55
>COG0217 Uncharacterized conserved protein [Function unknown]
Probab=26.36 E-value=78 Score=25.76 Aligned_cols=41 Identities=22% Similarity=0.264 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHhhCCCc--EEEEeccccHHHHHHHHHHHH
Q 031468 39 YKKLLKGLIVQSLLRLKEPA--VLLRCRKDDHHLVESVLESAK 79 (159)
Q Consensus 39 Y~~~L~~Li~e~~~~l~~~~--v~v~~~~~D~~~v~~~i~~~~ 79 (159)
=.++|..+|..++.-+...+ +.|+|-|.|...|.+.+....
T Consensus 149 ed~l~e~~ieagaeDv~~~~~~~~V~t~p~~~~~V~~~L~~~g 191 (241)
T COG0217 149 EDELLEAAIEAGAEDVEEDEGSIEVYTEPEDFNKVKEALEAAG 191 (241)
T ss_pred HHHHHHHHHHCCchhhhcCCCeEEEEEChHHHHHHHHHHHHcC
Confidence 36788888888887776664 899999999999999988643
No 56
>PF08360 TetR_C_5: QacR-like protein, C-terminal region; InterPro: IPR013571 This entry represents the C-terminal domain found in the multidrug-binding transcription regulator QacR (P23217 from SWISSPROT) from Staphylococcus aureus, which is a member of the TetR (tetracycline-resistance) transcriptional regulator family of proteins. QacR is able to bind various environmental agents, which include a number of cationic lipophilic compounds, and thus regulate the transcription of QacA (P23215 from SWISSPROT), a multidrug efflux pump []. The C-terminal region of QacR contains a multifaceted, expansive drug-binding pocket, which is composed of several separate, but linked, binding sites []. The C-terminal domains of QacR and TetR share a multi-helical, interlocking structure.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0045892 negative regulation of transcription, DNA-dependent; PDB: 2G0E_E 1JUM_A 1RPW_D 1QVT_B 2HQ5_D 1JT0_B 2DTZ_E 1JUP_D 1JT6_D 1JUS_E ....
Probab=24.91 E-value=2.3e+02 Score=20.42 Aligned_cols=42 Identities=12% Similarity=0.241 Sum_probs=29.1
Q ss_pred HHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHH
Q 031468 25 ASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLE 76 (159)
Q Consensus 25 a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~ 76 (159)
+.++|.++.. .|.++++++|.+|+. .++. ++.|.+.+.-++.
T Consensus 55 v~~~l~~i~~---~~~~~~~~ileeGI~---~GEF----~~~dv~~~a~il~ 96 (131)
T PF08360_consen 55 VLEKLNEIRR---KYLEFFQKILEEGID---SGEF----SIDDVEELAYILM 96 (131)
T ss_dssp HHHHHHHHHH---HHHHHHHHHHHHHHT---TTSS------STHHHHHHHHH
T ss_pred HHHHHHHHHH---HHHHHHHHHHHHHHH---cCcc----cCCCHHHHHHHHH
Confidence 6777777766 599999999999975 4444 3456666655544
No 57
>PF02108 FliH: Flagellar assembly protein FliH; InterPro: IPR018035 This entry represents a region found in the flagellar assembly protein FliH, as well as in type III secretion system protein HrpE. Many flagellar proteins are exported by a flagellum-specific export pathway. Attempts have been made to characterise the apparatus responsible for this process, by designing assays to screen for mutants with export defects. Experiments involving filament removal from temperature-sensitive flagellar mutants of Salmonella typhimurium have shown that, while most mutants were able to regrow filaments, flhA, fliH, fliI and fliN mutants showed no or greatly reduced regrowth. This suggests that the corresponding gene products are involved in the process of flagellum-specific export []. The sequence of fliH has been deduced and shown to encode a protein of molecular mass of 25,782 Da. Bacterial HrpE proteins are belived to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) [].
Probab=23.87 E-value=2.5e+02 Score=19.24 Aligned_cols=72 Identities=11% Similarity=0.167 Sum_probs=42.4
Q ss_pred HHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHHHHHHHHhhCCCCCeEEec
Q 031468 17 LVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESAKEEYAQKLQVHPPEIIVD 96 (159)
Q Consensus 17 ~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd 96 (159)
-++.++..+.+.+..+.. .+.+-|..|+...+..+-..++ ..|...+..++.++...... ....++|.++
T Consensus 6 ~l~~~~~~~~~~~~~~~~---~~~~~l~~l~~~iae~vi~~~l-----~~~~~~i~~~i~~al~~~~~--~~~~v~I~v~ 75 (128)
T PF02108_consen 6 ELEQLLEELEEALQELLE---ELEQELVELALAIAEKVIGREL-----EEDPEAILNLIREALQELPR--DEEKVTIRVH 75 (128)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHH-----hcCHHHHHHHHHHHHHHhhc--cCCCeEEEEC
Confidence 345555555555555544 5777777888777776654333 24556667777776633322 2225788887
Q ss_pred Cc
Q 031468 97 HH 98 (159)
Q Consensus 97 ~~ 98 (159)
++
T Consensus 76 p~ 77 (128)
T PF02108_consen 76 PD 77 (128)
T ss_pred HH
Confidence 53
No 58
>PF02100 ODC_AZ: Ornithine decarboxylase antizyme; InterPro: IPR002993 Ornithine decarboxylase antizyme (ODC-AZ) [] binds to, and destabilises, ornithine decarboxylase (ODC), a key enzyme in polyamine synthesis. ODC is then rapidly degraded. The expression of ODC-AZ requires programmed, ribosomal frameshifting which is modulated according to the cellular concentration of polyamines. High levels of polyamines induce a +1 ribosomal frameshift in the translation of mRNA for the antizyme leading to the expression of a full-length protein. At least two forms of ODC-AZ exist in mammals [] and the protein has been found in Drosophila (protein Gutfeeling).; GO: 0004857 enzyme inhibitor activity, 0008073 ornithine decarboxylase inhibitor activity; PDB: 1ZO0_A.
Probab=23.67 E-value=1.6e+02 Score=20.73 Aligned_cols=40 Identities=20% Similarity=0.166 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHhhCCCcEEEEeccccHHHHHHHHHHH
Q 031468 38 SYKKLLKGLIVQSLLRLKEPAVLLRCRKDDHHLVESVLESA 78 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~~~~v~v~~~~~D~~~v~~~i~~~ 78 (159)
.-++.|..|+.=|-..++.+.++|++++...+ ...+++..
T Consensus 38 ~~K~~lvaLLElAee~L~c~~vvic~~k~~~d-~~~Llr~l 77 (108)
T PF02100_consen 38 GSKESLVALLELAEEKLGCSHVVICLDKNRPD-RASLLRTL 77 (108)
T ss_dssp --SHHHHHHHHHHHHHH----EEEEE---SS--HHHHHHHH
T ss_pred ccHHHHHHHHHHhcCcCCCCEEEEEEECCchh-HHHhhhhc
Confidence 57888999999998889999999999887777 66666643
No 59
>PF05164 ZapA: Cell division protein ZapA; InterPro: IPR007838 This entry a structural domain found in the cell division protein ZapA, as well as in related proteins. This domain has a core structure consisting of two layers alpha/beta, and has a long C-terminal helix that forms dimeric parallel and tetrameric antiparallel coiled coils []. ZapA interacts with FtsZ, where FtsZ is part of a mid-cell cytokinetic structure termed the Z-ring that recruits a hierarchy of fission related proteins early in the bacterial cell cycle. ZapA drives the polymerisation and filament bundling of FtsZ, thereby contributing to the spatio-temporal tuning of the Z-ring.; PDB: 1T3U_B 1W2E_B 3HNW_A.
Probab=23.63 E-value=1.6e+02 Score=19.03 Aligned_cols=33 Identities=12% Similarity=0.249 Sum_probs=27.4
Q ss_pred hCCCcEEEEeccccHHHHHHHHHHHHHHHHHhh
Q 031468 54 LKEPAVLLRCRKDDHHLVESVLESAKEEYAQKL 86 (159)
Q Consensus 54 l~~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~~ 86 (159)
+.+....|.|.+.|.+.++++...+...+....
T Consensus 6 I~G~~y~i~~~~~~ee~l~~~a~~i~~~i~~~~ 38 (89)
T PF05164_consen 6 ILGREYRIKCPDEDEEYLRKAAELINEKINEIK 38 (89)
T ss_dssp ETTEEEEECETGCGHHHHHHHHHHHHHHHHHHC
T ss_pred ECCEEEEeecCCCCHHHHHHHHHHHHHHHHHHH
Confidence 445678899999999999999998888887654
No 60
>PRK05473 hypothetical protein; Provisional
Probab=23.13 E-value=1.1e+02 Score=20.85 Aligned_cols=23 Identities=13% Similarity=0.385 Sum_probs=17.6
Q ss_pred cchHHHHHHHHH-HHHHHHHHHHH
Q 031468 2 QLNASRIKVLQA-QDDLVSNMMEA 24 (159)
Q Consensus 2 ~~n~aR~~~L~a-r~~~i~~v~~~ 24 (159)
-.|.||..+.+. |++++++++..
T Consensus 56 sh~nAR~lIrkiERDEilEeLv~~ 79 (86)
T PRK05473 56 RHNDARNLIRKLERDEILEELVKS 79 (86)
T ss_pred CcccHHHHHHHHhHHHHHHHHHHH
Confidence 457788888777 88888887763
No 61
>PF14417 MEDS: MEDS: MEthanogen/methylotroph, DcmR Sensory domain
Probab=21.75 E-value=3.6e+02 Score=20.35 Aligned_cols=42 Identities=17% Similarity=0.165 Sum_probs=30.5
Q ss_pred cChhHHHHHHHHHHHHHHHhhCCCcEEEEec-cccHHHHHHHHHH
Q 031468 34 RDHNSYKKLLKGLIVQSLLRLKEPAVLLRCR-KDDHHLVESVLES 77 (159)
Q Consensus 34 ~~~~~Y~~~L~~Li~e~~~~l~~~~v~v~~~-~~D~~~v~~~i~~ 77 (159)
.++++|-+.+..-|.+|+.. ++.+.+.+. +.+.+.+.+.+.+
T Consensus 27 ~~~~e~~~~~~~Fi~~GL~~--ge~~l~v~~~~~~~~~l~~~L~~ 69 (191)
T PF14417_consen 27 DDEEELLEVLVPFIREGLAR--GERCLYVAPDPRRVEELRDELRK 69 (191)
T ss_pred CCHHHHHHHHHHHHHHHHHC--CCeEEEEECCCCCHHHHHHHHHh
Confidence 34568999999999999875 334555555 6788777777653
No 62
>PF08740 BCS1_N: BCS1 N terminal; InterPro: IPR014851 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport. Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. This domain is found at the N terminus of the mitochondrial BSC1 subfamily, belonging to the AAA ATPase family. At2g21640 and BCS1 are both highly stress responsive genes which encode mitochondrial proteins. The promoter of BCS1 was not responsive to H2O2 or rotenone, but highly responsive to salicylic acid (SA). The SA dependent pathway represented by BCS1 is one of at least three distinctive pathways to regulate mitochondrial stress response at a transcriptional level []. The BCS1 product is a mitochondrial protein required for the assembly of respiratory complex III []. BCS1, a component of the inner membrane of mitochondria, belongs to the group of proteins with internal, noncleavable import signals. It has a transmembrane domain (amino acid residues 51 to 68), a presequence type helix (residues 69 to 83), and an import auxiliary region (residues 84 to 126) [].
Probab=21.66 E-value=3.2e+02 Score=20.29 Aligned_cols=30 Identities=27% Similarity=0.480 Sum_probs=26.4
Q ss_pred CCcEEEEeccccHHHHHHHHHHHHHHHHHh
Q 031468 56 EPAVLLRCRKDDHHLVESVLESAKEEYAQK 85 (159)
Q Consensus 56 ~~~v~v~~~~~D~~~v~~~i~~~~~~~~~~ 85 (159)
.+.++|.|--.+.+.+++++.++...|.+.
T Consensus 127 ~e~l~l~~lg~s~~~l~~ll~ear~~~~~~ 156 (187)
T PF08740_consen 127 DETLTLSCLGRSPKPLKDLLEEAREYYLKK 156 (187)
T ss_pred ceEEEEEEecCCHHHHHHHHHHHHHHHHHh
Confidence 347999999999999999999999888654
No 63
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=21.54 E-value=3.4e+02 Score=20.49 Aligned_cols=47 Identities=6% Similarity=0.029 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhh
Q 031468 8 IKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRL 54 (159)
Q Consensus 8 ~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l 54 (159)
..+|..|++.+.+-+..|.+...+......+|...|...=.++-..+
T Consensus 50 ~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~e~e~~L~~A~~ea~~ii 96 (184)
T CHL00019 50 SDLLDNRKQTILNTIRNSEERREEAIEKLEKARARLRQAELEADEIR 96 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45788888888888888888877766655678888777666665544
No 64
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=21.51 E-value=98 Score=19.11 Aligned_cols=20 Identities=20% Similarity=0.228 Sum_probs=18.1
Q ss_pred EEEEeccccHHHHHHHHHHH
Q 031468 59 VLLRCRKDDHHLVESVLESA 78 (159)
Q Consensus 59 v~v~~~~~D~~~v~~~i~~~ 78 (159)
+.|+|.++|.+.+++++.++
T Consensus 46 ~~v~V~~~d~~~A~~il~~~ 65 (67)
T PF09413_consen 46 VEVYVPEEDYERAREILEEF 65 (67)
T ss_dssp EEEEEEGGGHHHHHHHHHHT
T ss_pred eEEEECHHHHHHHHHHHHHh
Confidence 88999999999999998854
No 65
>PF12401 DUF3662: Protein of unknown function (DUF2662) ; InterPro: IPR022128 This domain family is found in bacteria, and is approximately 120 amino acids in length. The family is found in association with PF00498 from PFAM. ; PDB: 2LC0_A.
Probab=21.49 E-value=2.1e+02 Score=20.22 Aligned_cols=45 Identities=7% Similarity=-0.039 Sum_probs=25.7
Q ss_pred hhHHHHHHHHHHHHHHHhhCCC------cEEEEeccccHHHHHHHHHHHHH
Q 031468 36 HNSYKKLLKGLIVQSLLRLKEP------AVLLRCRKDDHHLVESVLESAKE 80 (159)
Q Consensus 36 ~~~Y~~~L~~Li~e~~~~l~~~------~v~v~~~~~D~~~v~~~i~~~~~ 80 (159)
|.+-.+.|++-+......+..+ .-+|+++|.|.+.+..+...+..
T Consensus 26 PvEIa~~L~remd~~a~~~~~~r~~aPN~y~V~Ls~~D~~~l~~~~~~l~~ 76 (116)
T PF12401_consen 26 PVEIAKALRREMDDQARVVSRGRTLAPNVYTVELSPEDYERLSPWGDRLAR 76 (116)
T ss_dssp THHHHHHHHHHHHHT-B---TT--B---EEEEEEEHHHHHHH-S-SHHHHH
T ss_pred HHHHHHHHHHHHHhCCeecCCCCEEcCeeEEEEECHHHHHHHhhhHHHHHH
Confidence 4456666666666654444333 45799999999988765443333
No 66
>PRK08475 F0F1 ATP synthase subunit B; Validated
Probab=21.15 E-value=3.6e+02 Score=20.16 Aligned_cols=47 Identities=11% Similarity=0.099 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhh
Q 031468 8 IKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRL 54 (159)
Q Consensus 8 ~~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l 54 (159)
.++|..|++.|.+-++.|.+...+.......|...|...=.++-..+
T Consensus 48 ~~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~Ar~eA~~Ii 94 (167)
T PRK08475 48 KNFYKSRINKISKRLEEIQEKLKESKEKKEDALKKLEEAKEKAELIV 94 (167)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35778888888888888888877766655578888877766665444
No 67
>CHL00118 atpG ATP synthase CF0 B' subunit; Validated
Probab=21.03 E-value=3.5e+02 Score=19.90 Aligned_cols=47 Identities=17% Similarity=0.261 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhccChhHHHHHHHHHHHHHHHhhC
Q 031468 9 KVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQSLLRLK 55 (159)
Q Consensus 9 ~~L~ar~~~i~~v~~~a~~~L~~~~~~~~~Y~~~L~~Li~e~~~~l~ 55 (159)
++|..|++.+.+-+++|.+.-.+...-..+|...|...=.++-..+.
T Consensus 49 ~~l~~R~~~I~~~l~~Ae~~~~ea~~~~~e~e~~L~~A~~ea~~ii~ 95 (156)
T CHL00118 49 KVLDERKEYIRKNLTKASEILAKANELTKQYEQELSKARKEAQLEIT 95 (156)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 57888999999999999888887766656888888887777755543
No 68
>PF01709 Transcrip_reg: Transcriptional regulator; InterPro: IPR002876 This entry represents the core region of several hypothetical proteins found in bacteria, plants, and yeast proteins. This core region can be subdivided into three domains: a 3-helical bundle domain, and two alpha+beta domains with different folds, where domain 3 (ferredoxin-like fold) is inserted within domain 2. This core region is found in the following hypothetical proteins: YebC from Escherichia coli, HP0162 from Helicobacter pylori (Campylobacter pylori) and aq1575 from Aquifex aeolicus []. The crystal structure of a conserved hypothetical protein, Aq1575, from Aquifex aeolicus has been determined. A structural homology search reveals that this protein has a new fold with no obvious similarity to those of other proteins of known three-dimensional structure. The protein reveals a monomer consisting of three domains arranged along a pseudo threefold symmetry axis. There is a large cleft with approximate dimensions of 10 A x 10 A x 20 A in the centre of the three domains along the symmetry axis. Two possible active sites are suggested based on the structure and multiple sequence alignment. There are several highly conserved residues in these putative active sites [].; PDB: 1LFP_A 1MW7_A 1KON_A.
Probab=20.73 E-value=1.2e+02 Score=24.25 Aligned_cols=40 Identities=20% Similarity=0.263 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHHHHHhhCC--CcEEEEeccccHHHHHHHHHH
Q 031468 38 SYKKLLKGLIVQSLLRLKE--PAVLLRCRKDDHHLVESVLES 77 (159)
Q Consensus 38 ~Y~~~L~~Li~e~~~~l~~--~~v~v~~~~~D~~~v~~~i~~ 77 (159)
.+.+++...|.-+++-+.+ +.+.|+|.|.|...+...+.+
T Consensus 144 ~~d~~~e~aIe~GaeDve~~d~~~~~~c~p~~~~~v~~~L~~ 185 (234)
T PF01709_consen 144 DEDELMEDAIEAGAEDVEEDDGEFEFICDPSDLSAVKKALEK 185 (234)
T ss_dssp -HHHHHHHHHHHTESEEEECTSEEEEEEEGGGHHHHHHHHHH
T ss_pred ChHHHHHHHHhCCCcEeeecCCeEEEEECHHHHHHHHHHHHH
Confidence 6778888888877776653 369999999999999999886
No 69
>TIGR03299 LGT_TIGR03299 phage/plasmid-related protein TIGR03299. Members of this uncharacterized protein family are found in various Mycobacterium phage genomes, in Streptomyces coelicolor plasmid SCP1, and in bacterial genomes near various markers that suggest lateral gene transfer. The function is unknown.
Probab=20.69 E-value=68 Score=27.02 Aligned_cols=20 Identities=45% Similarity=0.896 Sum_probs=15.5
Q ss_pred EEEEecCC-----------cEEEeccHHHHH
Q 031468 119 VVVASRDG-----------KIVCENTLDARL 138 (159)
Q Consensus 119 viv~s~dg-----------~i~vdnTle~RL 138 (159)
+++.|+|| |++|+||+-.-+
T Consensus 135 lL~NSHDGssa~~~~~t~vRvVC~NTL~~a~ 165 (309)
T TIGR03299 135 LLATAHDGTLATTAQFTSVRVVCANTLAAAL 165 (309)
T ss_pred EEEeccCCccceEEecCcEEEEecCHHHHhc
Confidence 55667777 689999997766
No 70
>PF08775 ParB: ParB family; InterPro: IPR014884 ParB is a component of the par system which mediates accurate DNA partition during cell division. It recognises A-box and B-box DNA motifs. ParB forms an asymmetric dimer with 2 extended helix-turn-helix (HTH) motifs that bind to A-boxes. The HTH motifs emanate from a beta sheet coiled coil DNA binding module []. Both DNA binding elements are free to rotate around a flexible linker, this enables them to bind to complex arrays of A- and B-box elements on adjacent DNA arms of the looped partition site []. ; PDB: 1ZX4_A 2NTZ_B.
Probab=20.54 E-value=2.8e+02 Score=20.21 Aligned_cols=44 Identities=20% Similarity=0.284 Sum_probs=32.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcc--ChhHHHHHHHHHHHHHHHhhCCC
Q 031468 14 QDDLVSNMMEAASKEVLNVSR--DHNSYKKLLKGLIVQSLLRLKEP 57 (159)
Q Consensus 14 r~~~i~~v~~~a~~~L~~~~~--~~~~Y~~~L~~Li~e~~~~l~~~ 57 (159)
+.--+++++..+..++..... .+++|++.+-++|...+..+..+
T Consensus 25 ~~~~l~~~i~~v~~~~~~~~~~~~~de~K~~Il~~ik~~~~~l~~k 70 (127)
T PF08775_consen 25 NKVSLDELIDNVRSEIENIDDELSPDEVKKKILKLIKAELKSLKAK 70 (127)
T ss_dssp -HHHHHHHHHHHHHHHHHHTTSS-HHHHHHHHHHHHHHHHHHHTTH
T ss_pred cCCCHHHHHHHHHHHHHhhccccChHHHHHHHHHHHHHHHHhcccC
Confidence 334577888888888887765 44689999999999888766543
No 71
>PF09888 DUF2115: Uncharacterized protein conserved in archaea (DUF2115); InterPro: IPR019215 This entry represents various hypothetical archaeal proteins, has no known function.
Probab=20.14 E-value=3.7e+02 Score=20.36 Aligned_cols=18 Identities=28% Similarity=0.645 Sum_probs=14.1
Q ss_pred CCccccEEEEecCCcEEE
Q 031468 113 PSCSGGVVVASRDGKIVC 130 (159)
Q Consensus 113 ~~~~GGviv~s~dg~i~v 130 (159)
-...||+.|.-.+|.--|
T Consensus 123 ~~FPGG~~V~~~~g~YYC 140 (163)
T PF09888_consen 123 MPFPGGFKVEEKNGNYYC 140 (163)
T ss_pred CCCCCCeEEEEECCEEeC
Confidence 357899999999887543
No 72
>cd01274 AIDA-1b AIDA-1b Phosphotyrosine-binding (PTB) domain. AIDA-1b Phosphotyrosine-binding (PTB) domain. AIDA-1b is an amyloid-beta precursor protein interacting protein. It consists of ankyrin repeats, a SAM domain and a C-terminal PTB domain. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=20.13 E-value=3.4e+02 Score=19.49 Aligned_cols=50 Identities=8% Similarity=0.068 Sum_probs=26.6
Q ss_pred ccccHHHHHHHHHHHHHHHHHhhCCCCCeEEecCccCCCCCCCCCCCCCCCccccEEEEecCC-cEEEec
Q 031468 64 RKDDHHLVESVLESAKEEYAQKLQVHPPEIIVDHHIYLPPGPGHHNAHGPSCSGGVVVASRDG-KIVCEN 132 (159)
Q Consensus 64 ~~~D~~~v~~~i~~~~~~~~~~~~~~~~~v~vd~~~~L~~~~~~~~~~~~~~~GGviv~s~dg-~i~vdn 132 (159)
.|+-.+.+.+.+..++...+...+...+++.|+ .+||.+.+.+. .+..+.
T Consensus 16 ~~~G~~~~~~Am~kik~~~~~~~k~~~V~L~IS-------------------~~Gv~v~d~~tk~~i~~~ 66 (127)
T cd01274 16 ELEGTDSTHAAMTKIKESIIDWETIPRVTLDLT-------------------CNGVKFIDETFKTLIDGH 66 (127)
T ss_pred CCCCcHHHHHHHHHHHHhhhccCCCCEEEEEEe-------------------CCeEEEEECCCCeEEEEe
Confidence 445555667777766544432111113555554 48888887753 334443
Done!