Query 027700
Match_columns 220
No_of_seqs 119 out of 514
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 13:52:35 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/027700.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/027700hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5040 BMH1 14-3-3 family pro 100.0 7.8E-82 1.7E-86 524.2 12.9 207 4-213 3-209 (268)
2 smart00101 14_3_3 14-3-3 homol 100.0 2.4E-80 5.2E-85 537.7 21.6 206 6-212 1-206 (244)
3 PF00244 14-3-3: 14-3-3 protei 100.0 2.5E-76 5.5E-81 511.4 20.3 205 6-213 1-205 (236)
4 KOG0841 Multifunctional chaper 100.0 6.1E-72 1.3E-76 476.4 16.4 206 5-213 1-207 (247)
5 PF13424 TPR_12: Tetratricopep 96.7 0.0037 8E-08 43.8 5.0 55 150-206 21-75 (78)
6 KOG1840 Kinesin light chain [C 94.8 2.2 4.8E-05 41.4 16.5 187 7-208 200-398 (508)
7 PF12862 Apc5: Anaphase-promot 93.1 0.41 8.9E-06 35.3 6.5 75 133-213 2-77 (94)
8 TIGR00990 3a0801s09 mitochondr 92.8 5.5 0.00012 38.7 15.6 55 150-206 483-537 (615)
9 KOG4162 Predicted calmodulin-b 89.8 12 0.00025 38.1 14.3 163 18-206 335-507 (799)
10 KOG1840 Kinesin light chain [C 89.5 21 0.00046 34.6 16.2 179 8-204 285-477 (508)
11 PF13414 TPR_11: TPR repeat; P 86.0 3.4 7.3E-05 27.6 5.9 47 150-205 19-66 (69)
12 PF04781 DUF627: Protein of un 84.0 4.2 9.1E-05 31.6 6.2 57 106-163 16-73 (111)
13 PF13374 TPR_10: Tetratricopep 80.7 1.7 3.7E-05 25.9 2.4 24 150-173 18-41 (42)
14 TIGR02917 PEP_TPR_lipo putativ 74.0 88 0.0019 30.2 17.0 28 7-34 704-731 (899)
15 PF13431 TPR_17: Tetratricopep 73.7 3.6 7.8E-05 24.6 2.4 34 156-198 1-34 (34)
16 PF13424 TPR_12: Tetratricopep 72.4 7.1 0.00015 26.7 4.0 34 172-206 1-34 (78)
17 PF13174 TPR_6: Tetratricopept 69.6 9.8 0.00021 21.3 3.6 27 8-34 2-28 (33)
18 PRK09782 bacteriophage N4 rece 67.0 1.7E+02 0.0038 30.8 15.5 26 9-34 512-537 (987)
19 TIGR02521 type_IV_pilW type IV 64.6 67 0.0014 25.1 17.5 57 7-68 32-88 (234)
20 PF14559 TPR_19: Tetratricopep 64.3 24 0.00052 23.2 5.2 48 151-207 8-55 (68)
21 PF13181 TPR_8: Tetratricopept 63.9 21 0.00045 20.3 4.3 27 8-34 3-29 (34)
22 PF01765 RRF: Ribosome recycli 63.5 44 0.00095 27.2 7.6 73 40-113 85-157 (165)
23 PF07719 TPR_2: Tetratricopept 63.1 21 0.00045 20.1 4.2 26 9-34 4-29 (34)
24 KOG4759 Ribosome recycling fac 61.7 40 0.00086 30.1 7.3 71 40-113 183-253 (263)
25 PF13176 TPR_7: Tetratricopept 61.5 18 0.00039 21.5 3.8 26 9-34 2-27 (36)
26 TIGR02917 PEP_TPR_lipo putativ 57.8 1.8E+02 0.004 28.0 16.4 61 7-72 23-83 (899)
27 CHL00033 ycf3 photosystem I as 56.2 42 0.00092 26.5 6.2 69 122-206 33-101 (168)
28 COG0233 Frr Ribosome recycling 55.9 60 0.0013 27.5 7.1 73 40-113 105-177 (187)
29 PF13371 TPR_9: Tetratricopept 55.2 25 0.00054 23.4 4.1 49 151-208 12-60 (73)
30 PF12895 Apc3: Anaphase-promot 55.0 17 0.00036 25.4 3.3 44 156-202 40-83 (84)
31 PRK14720 transcript cleavage f 54.9 53 0.0011 34.3 7.9 88 107-207 88-179 (906)
32 PF13428 TPR_14: Tetratricopep 54.3 31 0.00067 21.3 4.1 27 8-34 3-29 (44)
33 PF13432 TPR_16: Tetratricopep 53.5 40 0.00087 22.0 4.9 53 11-68 2-54 (65)
34 cd00520 RRF Ribosome recycling 52.9 58 0.0013 27.1 6.7 73 40-113 99-171 (179)
35 TIGR00496 frr ribosome recycli 52.6 68 0.0015 26.7 7.0 73 40-113 94-166 (176)
36 PF12895 Apc3: Anaphase-promot 52.4 27 0.00058 24.3 4.0 45 151-202 6-50 (84)
37 PF05010 TACC: Transforming ac 51.2 95 0.0021 26.6 7.8 84 11-110 123-206 (207)
38 PRK00083 frr ribosome recyclin 50.8 75 0.0016 26.6 7.0 73 40-113 103-175 (185)
39 TIGR02795 tol_pal_ybgF tol-pal 50.6 46 0.001 23.7 5.2 52 150-207 55-106 (119)
40 PRK02603 photosystem I assembl 47.5 75 0.0016 25.3 6.4 51 150-206 51-101 (172)
41 PF00515 TPR_1: Tetratricopept 46.3 49 0.0011 18.7 3.9 26 9-34 4-29 (34)
42 PRK11447 cellulose synthase su 44.6 4.1E+02 0.0089 28.2 17.4 27 8-34 114-140 (1157)
43 TIGR00990 3a0801s09 mitochondr 44.1 3.1E+02 0.0067 26.6 17.9 51 150-209 524-574 (615)
44 KOG1126 DNA-binding cell divis 42.9 35 0.00076 34.0 4.3 69 128-205 483-551 (638)
45 cd05804 StaR_like StaR_like; a 41.7 2.4E+02 0.0052 24.6 12.8 29 175-204 185-213 (355)
46 PRK10049 pgaA outer membrane p 40.3 4E+02 0.0087 26.8 15.3 25 10-34 87-111 (765)
47 PF12688 TPR_5: Tetratrico pep 36.9 1.6E+02 0.0034 22.8 6.4 50 151-206 18-67 (120)
48 PF13432 TPR_16: Tetratricopep 36.8 94 0.002 20.1 4.6 46 151-205 14-59 (65)
49 COG3063 PilF Tfp pilus assembl 35.7 54 0.0012 29.0 3.9 48 150-206 85-132 (250)
50 PRK15359 type III secretion sy 34.8 1.4E+02 0.0031 23.2 6.0 49 150-207 74-122 (144)
51 PF09986 DUF2225: Uncharacteri 34.7 2.5E+02 0.0054 23.9 7.9 70 130-205 124-193 (214)
52 CHL00033 ycf3 photosystem I as 34.6 1.2E+02 0.0027 23.8 5.8 46 150-203 88-139 (168)
53 PF12569 NARP1: NMDA receptor- 34.3 4.5E+02 0.0097 25.6 17.6 69 144-213 156-230 (517)
54 smart00028 TPR Tetratricopepti 34.0 67 0.0015 16.0 3.5 26 9-34 4-29 (34)
55 PLN03088 SGT1, suppressor of 34.0 1.1E+02 0.0024 27.8 6.0 25 180-205 74-98 (356)
56 KOG1679 Enoyl-CoA hydratase [L 32.9 45 0.00098 29.3 3.0 38 136-174 190-236 (291)
57 PRK10370 formate-dependent nit 31.9 2.4E+02 0.0052 23.3 7.3 11 127-137 76-86 (198)
58 PRK11447 cellulose synthase su 31.1 6.7E+02 0.014 26.7 15.9 55 11-70 356-410 (1157)
59 TIGR03504 FimV_Cterm FimV C-te 31.1 96 0.0021 19.8 3.7 40 10-51 3-42 (44)
60 PF03755 YicC_N: YicC-like fam 30.1 47 0.001 26.9 2.6 61 152-212 82-146 (159)
61 COG1849 Uncharacterized protei 29.1 1.4E+02 0.003 22.4 4.6 36 175-215 37-75 (90)
62 PF08424 NRDE-2: NRDE-2, neces 29.0 1.7E+02 0.0037 26.2 6.3 56 150-206 118-183 (321)
63 PRK10049 pgaA outer membrane p 28.2 6.3E+02 0.014 25.5 16.1 26 9-34 52-77 (765)
64 PRK15326 type III secretion sy 27.9 1.6E+02 0.0034 21.6 4.7 45 150-197 20-68 (80)
65 COG4235 Cytochrome c biogenesi 27.5 2E+02 0.0044 25.9 6.4 87 105-212 141-228 (287)
66 cd02683 MIT_1 MIT: domain cont 27.5 1.5E+02 0.0034 21.0 4.6 28 7-34 7-34 (77)
67 PF10516 SHNi-TPR: SHNi-TPR; 27.5 77 0.0017 19.7 2.6 37 132-171 2-38 (38)
68 TIGR03302 OM_YfiO outer membra 27.3 1.6E+02 0.0035 24.1 5.5 49 152-206 51-99 (235)
69 PF14490 HHH_4: Helix-hairpin- 27.2 1.1E+02 0.0025 22.3 4.0 48 127-186 38-86 (94)
70 PRK11189 lipoprotein NlpI; Pro 26.8 1.7E+02 0.0036 25.7 5.7 47 151-206 115-161 (296)
71 PF06552 TOM20_plant: Plant sp 26.7 93 0.002 26.3 3.8 70 135-209 36-108 (186)
72 PF09613 HrpB1_HrpK: Bacterial 26.3 3.7E+02 0.008 22.1 7.2 57 6-69 44-100 (160)
73 PF08631 SPO22: Meiosis protei 26.1 1.9E+02 0.004 25.3 5.9 56 150-206 9-65 (278)
74 KOG4507 Uncharacterized conser 26.0 46 0.001 33.4 2.1 44 124-184 220-263 (886)
75 cd02682 MIT_AAA_Arch MIT: doma 25.4 1.3E+02 0.0028 21.6 3.9 27 8-34 8-34 (75)
76 PF14938 SNAP: Soluble NSF att 24.8 2.4E+02 0.0053 24.5 6.4 57 151-210 132-188 (282)
77 KOG2002 TPR-containing nuclear 24.7 1.4E+02 0.0029 31.5 5.2 50 155-208 250-301 (1018)
78 smart00745 MIT Microtubule Int 24.5 1.4E+02 0.003 20.6 3.9 27 8-34 10-36 (77)
79 PF10083 DUF2321: Uncharacteri 24.2 4.1E+02 0.0089 21.9 7.7 33 24-59 83-115 (158)
80 cd02678 MIT_VPS4 MIT: domain c 24.0 1.4E+02 0.0031 20.8 3.9 28 7-34 7-34 (75)
81 PF12083 DUF3560: Domain of un 23.8 95 0.002 24.6 3.2 28 149-177 21-48 (126)
82 cd02656 MIT MIT: domain contai 23.7 2.5E+02 0.0054 19.3 6.0 27 8-34 8-34 (75)
83 TIGR02105 III_needle type III 23.7 2.3E+02 0.005 20.2 4.9 36 148-186 12-51 (72)
84 PF14689 SPOB_a: Sensor_kinase 23.5 1.7E+02 0.0036 19.8 4.0 24 11-34 28-51 (62)
85 cd07589 BAR_DNMBP The Bin/Amph 23.4 4.3E+02 0.0094 21.9 8.0 50 130-179 115-164 (195)
86 PF08717 nsp8: nsp8 replicase; 22.7 71 0.0015 27.2 2.4 38 150-207 15-52 (199)
87 PF04212 MIT: MIT (microtubule 22.5 1.8E+02 0.0039 19.7 4.1 27 8-34 7-33 (69)
88 PF09324 DUF1981: Domain of un 22.0 3.1E+02 0.0067 19.7 6.1 36 41-76 29-68 (86)
89 TIGR03302 OM_YfiO outer membra 21.9 4.4E+02 0.0096 21.5 17.7 62 7-72 34-97 (235)
90 PHA02103 hypothetical protein 21.7 33 0.00071 26.7 0.2 15 130-144 78-92 (135)
91 cd05493 Bromo_ALL-1 Bromodomai 21.7 1.1E+02 0.0023 24.6 3.1 37 96-132 75-118 (131)
92 PRK10803 tol-pal system protei 21.2 2.2E+02 0.0049 24.9 5.4 49 155-204 194-244 (263)
93 KOG4626 O-linked N-acetylgluco 21.1 41 0.0009 34.0 0.8 46 151-205 269-314 (966)
94 PF00244 14-3-3: 14-3-3 protei 21.1 3.2E+02 0.0069 23.5 6.2 59 93-164 140-203 (236)
95 PRK15363 pathogenicity island 20.9 3.7E+02 0.0081 22.0 6.2 53 145-210 80-132 (157)
96 PF13525 YfiO: Outer membrane 20.7 3.3E+02 0.0072 22.4 6.1 65 5-71 4-68 (203)
97 PF00901 Orbi_VP5: Orbivirus o 20.7 3.9E+02 0.0085 26.1 7.1 71 21-95 120-193 (508)
98 TIGR02284 conserved hypothetic 20.7 2E+02 0.0043 22.7 4.5 20 151-172 98-117 (139)
99 cd02681 MIT_calpain7_1 MIT: do 20.4 1.9E+02 0.004 20.7 3.9 27 8-34 8-34 (76)
100 TIGR02561 HrpB1_HrpK type III 20.1 3.8E+02 0.0083 22.0 6.1 56 7-69 45-100 (153)
No 1
>COG5040 BMH1 14-3-3 family protein [Signal transduction mechanisms]
Probab=100.00 E-value=7.8e-82 Score=524.20 Aligned_cols=207 Identities=64% Similarity=0.996 Sum_probs=202.5
Q ss_pred CcHHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhh
Q 027700 4 PTREQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEH 83 (220)
Q Consensus 4 ~~re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~ 83 (220)
..|++-+|+|||++|||||+||++.||.++. . +.+|+.+|||||||||||+||+||+|||++++++||++++|++.+
T Consensus 3 ~~rE~svylAkLaeqAERYe~MvenMk~vas--~-~~eLsVeeRNLlSVAYKNvigaRRaSWRivsSieQKeEsk~~~~q 79 (268)
T COG5040 3 TSREDSVYLAKLAEQAERYEEMVENMKLVAS--S-GQELSVEERNLLSVAYKNVIGARRASWRIVSSIEQKEESKGNTHQ 79 (268)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh--c-cchhhHHHHHHHHHHHHHHhhhhhhhhhhhhhHHHHHhcCCChhH
Confidence 3599999999999999999999999999997 2 599999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHH
Q 027700 84 VSLVKDYRSKVESELSDVCGSILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDI 163 (220)
Q Consensus 84 ~~~i~~yk~ki~~EL~~~C~eil~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~ 163 (220)
+.+|++|+++|++||..||+||+++|++||||.+++.|++|||+|||||||||+|||..|+.++++.+.+.++|+.|.++
T Consensus 80 v~lI~eyrkkiE~EL~~icddiL~vl~~hlipaa~~~EskvFyyKMKGDYyRYlAEf~~G~~~~e~a~~slE~YK~Asei 159 (268)
T COG5040 80 VELIKEYRKKIETELTKICDDILSVLEKHLIPAATTGESKVFYYKMKGDYYRYLAEFSVGEAREEAADSSLEAYKAASEI 159 (268)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccccceEEEEeecchHHHHHHHhccchHhHHHHHhHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccccchh
Q 027700 164 ALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGCQRL 213 (220)
Q Consensus 164 a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~~ 213 (220)
|..+||||||||||||||||||||||+|+|++||.+||+|||+||++||-
T Consensus 160 A~teLpPT~PirLGLALNfSVFyYEIlnspdkAC~lAKqaFDeAI~ELDt 209 (268)
T COG5040 160 ATTELPPTHPIRLGLALNFSVFYYEILNSPDKACHLAKQAFDEAISELDT 209 (268)
T ss_pred hhccCCCCCchhhhheecceeeeeecccCcHHHHHHHHHHHHHHHHHHhh
Confidence 99999999999999999999999999999999999999999999999984
No 2
>smart00101 14_3_3 14-3-3 homologues. 14-3-3 homologues mediates signal transduction by binding to phosphoserine-containing proteins. They are involved in growth factor signalling and also interact with MEK kinases.
Probab=100.00 E-value=2.4e-80 Score=537.73 Aligned_cols=206 Identities=70% Similarity=1.064 Sum_probs=198.4
Q ss_pred HHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhH
Q 027700 6 REQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVS 85 (220)
Q Consensus 6 re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~ 85 (220)
|++++|+||+++||||||||+.+||++++. .++.+||.||||||||||||+||++|+|||+|+++|++++.+|++.+++
T Consensus 1 re~~v~~Aklaeq~eRyddm~~~mk~~~~~-~~~~eLt~EERnLLSvayKn~i~~~R~s~R~i~sie~ke~~~~~~~~~~ 79 (244)
T smart00101 1 REENVYMAKLAEQAERYEEMVEFMEKVAKT-VDSEELTVEERNLLSVAYKNVIGARRASWRIISSIEQKEESRGNEDHVA 79 (244)
T ss_pred ChHHHHHHHHHHHhcCHHHHHHHHHHHHhh-cCCccCCHHHHHHHHHHHhhhhcccHHHHHHHhHHHHhhhccCchHHHH
Confidence 689999999999999999999999999983 1225999999999999999999999999999999999988788888889
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHh
Q 027700 86 LVKDYRSKVESELSDVCGSILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIAL 165 (220)
Q Consensus 86 ~i~~yk~ki~~EL~~~C~eil~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~ 165 (220)
.+++||++|++||..+|++|+++||++|||.+++++++|||+|||||||||+|||..|+++++++++|+++|++|+++|+
T Consensus 80 ~~~~yr~kie~EL~~iC~eil~lid~~Lip~~~~~eskVFy~KmKGDYyRYlaE~~~~~e~~~~~~~a~~aY~~A~e~a~ 159 (244)
T smart00101 80 SIKEYRGKIETELSKICDGILKLLESHLIPSASAAESKVFYLKMKGDYHRYLAEFKTGAERKEAAENTLVAYKSAQDIAL 159 (244)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhCccccCcHHHHHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccccch
Q 027700 166 TDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGCQR 212 (220)
Q Consensus 166 ~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~ 212 (220)
++||||||+||||+||||||||||+|+|++||++|++|||+||+++|
T Consensus 160 ~~L~pt~PirLgLaLN~SVF~yEI~~~~~~A~~lAk~afd~Ai~~ld 206 (244)
T smart00101 160 AELPPTHPIRLGLALNFSVFYYEILNSPDRACNLAKQAFDEAIAELD 206 (244)
T ss_pred ccCCCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhh
Confidence 89999999999999999999999999999999999999999999998
No 3
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=100.00 E-value=2.5e-76 Score=511.35 Aligned_cols=205 Identities=62% Similarity=0.971 Sum_probs=195.8
Q ss_pred HHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhH
Q 027700 6 REQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVS 85 (220)
Q Consensus 6 re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~ 85 (220)
|++++|+||+++|||||+||+++||++++ . +++||.|||||||+||||+||++|+|||+|++++++++.+|++..++
T Consensus 1 Re~li~~Aklaeq~eRy~dmv~~mk~~~~--~-~~eLt~eERnLlsvayKn~i~~~R~s~R~l~~~e~~~~~~~~~~~~~ 77 (236)
T PF00244_consen 1 REELIYLAKLAEQAERYDDMVEYMKQLIE--M-NPELTEEERNLLSVAYKNVIGSRRASWRILSSIEQKEENKGNEKQVK 77 (236)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHH--T-SS---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTTHHHHH
T ss_pred ChHHHHHHHHHHHhcCHHHHHHHHHHHHc--c-CCCCCHHHHHHHHHHHHhccccchHHHHhhhhHhhhhcccchhHHHH
Confidence 89999999999999999999999999998 3 59999999999999999999999999999999999999888899999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHh
Q 027700 86 LVKDYRSKVESELSDVCGSILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIAL 165 (220)
Q Consensus 86 ~i~~yk~ki~~EL~~~C~eil~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~ 165 (220)
.+++||++|++||..+|++|+++||++|+|.+++++++|||+|||||||||+||+..|+++++++++|.++|++|+++|+
T Consensus 78 ~i~~yk~kie~EL~~~C~eii~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~ 157 (236)
T PF00244_consen 78 LIKDYKKKIEDELIDICNEIIRLIDKSLIPSATSPESKVFYYKMKGDYYRYLAEFDSGDEKKEAAEKALEAYEEALEIAK 157 (236)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHS-SHHHHHHHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhccccchhHHHHHHHHhccccccccccccchhhHHHHHHHHHhhhhHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccccchh
Q 027700 166 TDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGCQRL 213 (220)
Q Consensus 166 ~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~~ 213 (220)
++||||||+||||+||||||||||+|++++||++|++|||+||+++|-
T Consensus 158 ~~L~~~~p~rLgl~LN~svF~yei~~~~~~A~~ia~~afd~a~~~l~~ 205 (236)
T PF00244_consen 158 KELPPTHPLRLGLALNYSVFYYEILNDPEKAIEIAKQAFDEAISELDT 205 (236)
T ss_dssp HHSCTTSHHHHHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHGGGG
T ss_pred cccCCCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhhhcc
Confidence 899999999999999999999999999999999999999999999983
No 4
>KOG0841 consensus Multifunctional chaperone (14-3-3 family) [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.1e-72 Score=476.44 Aligned_cols=206 Identities=67% Similarity=1.008 Sum_probs=200.8
Q ss_pred cHHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhh
Q 027700 5 TREQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHV 84 (220)
Q Consensus 5 ~re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~ 84 (220)
+|+++|++||+++|||||+||+.+||.+++ . +.+||.||||||||+|||+||++|+|||+|+++|||++++|++.++
T Consensus 1 ~~~~~v~~akl~eqaery~~m~~~Mk~v~~-~--~~eLtveernllsvayknVigarrasWriisSiEqKees~~~e~~v 77 (247)
T KOG0841|consen 1 EREELVYKAKLAEQAERYDEMVEAMKKVAE-L--DVELTVEERNLLSVAYKNVIGARRASWRIISSIEQKEESKGNEEKV 77 (247)
T ss_pred CHHHHHHHHHHHHHHHhHHHHHHHHHhhcc-c--chhhhHHHHhhhhhhhccccchhHHHHHHhhhhhhcccCCCcchHH
Confidence 489999999999999999999999999998 3 5999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhccCCCCCC-CchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHH
Q 027700 85 SLVKDYRSKVESELSDVCGSILKLLDSHLVPSATA-GESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDI 163 (220)
Q Consensus 85 ~~i~~yk~ki~~EL~~~C~eil~lId~~Lip~~~~-~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~ 163 (220)
..+..||++|+.||..+|++++.++|.+|+|+++. .+++|||+|||||||||+|||.+|++|++++++++++|+.|.++
T Consensus 78 ~~i~~yr~~vE~El~~ic~~iL~lld~~Li~sa~~~~es~vf~~kmKgdy~rylae~~sg~erke~~~~sl~aYk~a~~i 157 (247)
T KOG0841|consen 78 KMIKEYRQKVETELAKICDDILSLLDKHLIPSATLPGESKVFYLKMKGDYYRYLAEFASGDERKEAADQSLEAYKEASEI 157 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccccceeeeeccchhHHHHHHhcchhHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999988 78899999999999999999999999999999999999999999
Q ss_pred HhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccccchh
Q 027700 164 ALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGCQRL 213 (220)
Q Consensus 164 a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~~ 213 (220)
++..|+|||||||||+||||||||||+|.|++||.|||+|||+||+++|-
T Consensus 158 a~~~l~PthPirLgLaLnfSvf~yeilnsPe~ac~lak~a~d~ai~eldt 207 (247)
T KOG0841|consen 158 AKAELQPTHPIRLGLALNFSVFYYEILNSPERACSLAKQAFDEAIAELDT 207 (247)
T ss_pred HHhcCCCCCchHHHHHHHHHHHHHHHHcChHHHHHHHHHHHHHHHHhhcc
Confidence 99999999999999999999999999999999999999999999999984
No 5
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=96.70 E-value=0.0037 Score=43.82 Aligned_cols=55 Identities=25% Similarity=0.298 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
-++|.+.|++|+++ .+.+++.||...-...|.+..++. +|+.++|.+..++|++.
T Consensus 21 ~~~A~~~~~~al~~-~~~~~~~~~~~a~~~~~lg~~~~~-~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 21 YDEALDYYEKALDI-EEQLGDDHPDTANTLNNLGECYYR-LGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHH-HHHTTTHHHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH-HHHHCCCCHHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHhh
Confidence 46789999999999 557999999888889999999998 89999999999999863
No 6
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=94.78 E-value=2.2 Score=41.35 Aligned_cols=187 Identities=17% Similarity=0.194 Sum_probs=123.8
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhhc--cCCC-CCCCHH-HHHHHHHHHHhhhhhhhhHHHHHH-hhhhhhhcccc-
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVTS--STPA-TELTVE-ERNLLSVAYKNVIGSLRAAWRIIS-SIEQKEEGRKN- 80 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~~--~~~~-~~Ls~e-ERnLlsvayKn~i~~~R~s~R~l~-sieqk~~~~~~- 80 (220)
..+.++|....+.|+|+.++...|+.++. +..| ..+-.. ..+-|++.|-+ .+..+.|..+.. ++...++..|.
T Consensus 200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~-~~k~~eAv~ly~~AL~i~e~~~G~~ 278 (508)
T KOG1840|consen 200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRS-LGKYDEAVNLYEEALTIREEVFGED 278 (508)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHH-hccHHHHHHHHHHHHHHHHHhcCCC
Confidence 34567888999999999999999998863 1110 122222 33446666654 344566666664 23333444443
Q ss_pred -hhhhHHHHH-----HHHHHHHHHHHHHHHHHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHHH
Q 027700 81 -EEHVSLVKD-----YRSKVESELSDVCGSILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTM 154 (220)
Q Consensus 81 -~~~~~~i~~-----yk~ki~~EL~~~C~eil~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~ 154 (220)
+.....+.+ ++.-=-.|-...|+.+++|..+. +.+..++-.. .+.|+..-..-..-.+.|.
T Consensus 279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~--~~~~~~~v~~-----------~l~~~~~~~~~~~~~Eea~ 345 (508)
T KOG1840|consen 279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKL--LGASHPEVAA-----------QLSELAAILQSMNEYEEAK 345 (508)
T ss_pred CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHh--hccChHHHHH-----------HHHHHHHHHHHhcchhHHH
Confidence 333333332 34444578889999999999883 3333333221 1223322222223367889
Q ss_pred HHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcccc
Q 027700 155 LSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPH 208 (220)
Q Consensus 155 ~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai 208 (220)
..|+.|+++....+.+.||.-=|.--|+++.|+- +|..++|-++.++|...+.
T Consensus 346 ~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~-~gk~~ea~~~~k~ai~~~~ 398 (508)
T KOG1840|consen 346 KLLQKALKIYLDAPGEDNVNLAKIYANLAELYLK-MGKYKEAEELYKKAIQILR 398 (508)
T ss_pred HHHHHHHHHHHhhccccchHHHHHHHHHHHHHHH-hcchhHHHHHHHHHHHHHH
Confidence 9999999999988999999999999999999998 7999999999999987764
No 7
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=93.10 E-value=0.41 Score=35.30 Aligned_cols=75 Identities=19% Similarity=0.214 Sum_probs=54.5
Q ss_pred hhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHH-HHHHHHHHHHhCChHHHHHHHHHhhccccccc
Q 027700 133 YYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLA-LNFSVFYYEILNSSEKACTMAKQVCFIPHGCQ 211 (220)
Q Consensus 133 yyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~-LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~ 211 (220)
|.||+--+..++ -..|.+.....++.+..+..+.++..+..+ ||.+.+++. +|++++|....++|.+.|-+.-
T Consensus 2 ~l~~~~~~~~~d-----y~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~-~G~~~~A~~~l~eAi~~Are~~ 75 (94)
T PF12862_consen 2 YLRYLNALRSGD-----YSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRR-FGHYEEALQALEEAIRLARENG 75 (94)
T ss_pred HHHHHHHHHcCC-----HHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHHHHHC
Confidence 345555555554 245777888888888777776654455544 888998888 7999999999999998887765
Q ss_pred hh
Q 027700 212 RL 213 (220)
Q Consensus 212 ~~ 213 (220)
|-
T Consensus 76 D~ 77 (94)
T PF12862_consen 76 DR 77 (94)
T ss_pred CH
Confidence 54
No 8
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=92.81 E-value=5.5 Score=38.71 Aligned_cols=55 Identities=11% Similarity=0.152 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
.+.|...|++|+++.. ..++.++-.++ .+|.+..+|+-.|+.++|.++..+|...
T Consensus 483 ~~~A~~~~~~Al~l~p-~~~~~~~~~~~-l~~~a~~~~~~~~~~~eA~~~~~kAl~l 537 (615)
T TIGR00990 483 FDEAIEKFDTAIELEK-ETKPMYMNVLP-LINKALALFQWKQDFIEAENLCEKALII 537 (615)
T ss_pred HHHHHHHHHHHHhcCC-ccccccccHHH-HHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence 3567777777776543 22333332222 3444455555567777777777776543
No 9
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=89.77 E-value=12 Score=38.05 Aligned_cols=163 Identities=21% Similarity=0.273 Sum_probs=93.1
Q ss_pred HhCCHHHHHHHHHHHhhccCCCCCCCHHHH-HHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHH----
Q 027700 18 QAERYEEMVKFMDSLVTSSTPATELTVEER-NLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRS---- 92 (220)
Q Consensus 18 q~eRy~Dm~~~mk~~i~~~~~~~~Ls~eER-nLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~---- 92 (220)
.+|+|....+++.+..- ..+..-|| +.++.+|-. .++--.+.+.+..--.+.+. .+....++--++.
T Consensus 335 ~~g~f~~lae~fE~~~~-----~~~~~~e~w~~~als~sa-ag~~s~Av~ll~~~~~~~~~--ps~~s~~Lmasklc~e~ 406 (799)
T KOG4162|consen 335 RCGQFEVLAEQFEQALP-----FSFGEHERWYQLALSYSA-AGSDSKAVNLLRESLKKSEQ--PSDISVLLMASKLCIER 406 (799)
T ss_pred HHHHHHHHHHHHHHHhH-----hhhhhHHHHHHHHHHHHH-hccchHHHHHHHhhcccccC--CCcchHHHHHHHHHHhc
Confidence 46778888888877653 23333343 333433322 23333444444321111110 1111122222221
Q ss_pred -HHHHHHHHHHHHHHHHh---hhccCCCCCCCchHHHHHhhhcchhhhhhhccc-chhHHHHHHHHHHHHHHHHHHHhhc
Q 027700 93 -KVESELSDVCGSILKLL---DSHLVPSATAGESKVFYLKMKGDYYRYLAEFKV-GDERKAAAENTMLSYKAAQDIALTD 167 (220)
Q Consensus 93 -ki~~EL~~~C~eil~lI---d~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~-~~~~~~~~~~a~~aY~~A~~~a~~~ 167 (220)
+.-+|..++...++++. ..+|.| + -+++-|=.|-..|-..+ .++|+....++.++|++|.+
T Consensus 407 l~~~eegldYA~kai~~~~~~~~~l~~-------~--~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~----- 472 (799)
T KOG4162|consen 407 LKLVEEGLDYAQKAISLLGGQRSHLKP-------R--GYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQ----- 472 (799)
T ss_pred hhhhhhHHHHHHHHHHHhhhhhhhhhh-------h--HHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHh-----
Confidence 22355666665555533 122222 2 25677888877776544 45788889999999999974
Q ss_pred CCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 168 LAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 168 L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
+.|+|| -...+.|++|-+ .++.+.|.+.++.+..-
T Consensus 473 ~d~~dp---~~if~lalq~A~-~R~l~sAl~~~~eaL~l 507 (799)
T KOG4162|consen 473 FDPTDP---LVIFYLALQYAE-QRQLTSALDYAREALAL 507 (799)
T ss_pred cCCCCc---hHHHHHHHHHHH-HHhHHHHHHHHHHHHHh
Confidence 778999 345566777666 79999999999998876
No 10
>KOG1840 consensus Kinesin light chain [Cytoskeleton]
Probab=89.54 E-value=21 Score=34.64 Aligned_cols=179 Identities=17% Similarity=0.138 Sum_probs=107.6
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhhccC-CCCCCCHHHHHHHHH---------HHHhhhhhhhhHHHHHHhhhhhhhc
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVTSST-PATELTVEERNLLSV---------AYKNVIGSLRAAWRIISSIEQKEEG 77 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~-~~~~Ls~eERnLlsv---------ayKn~i~~~R~s~R~l~sieqk~~~ 77 (220)
-+..+|.++...|+|+++-.+++.++++.. ..+....+--..|+. .|...+.=.+.+.+++ ++....
T Consensus 285 ~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~---~~~~g~ 361 (508)
T KOG1840|consen 285 TLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIY---LDAPGE 361 (508)
T ss_pred HHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHH---Hhhccc
Confidence 466788889999999999999998885431 001233332222221 1223333333333333 222211
Q ss_pred cc-ch--hhhHHHHHHH-HHHHHHHHHHHHHHHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHH
Q 027700 78 RK-NE--EHVSLVKDYR-SKVESELSDVCGSILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENT 153 (220)
Q Consensus 78 ~~-~~--~~~~~i~~yk-~ki~~EL~~~C~eil~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a 153 (220)
.. +. -+.++-.-|. .-=.+|-..+-..+++...... ...+...-.+++.|-.+|+|-- -.+.|
T Consensus 362 ~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~--~~~~~~~~~~l~~la~~~~~~k-----------~~~~a 428 (508)
T KOG1840|consen 362 DNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELL--GKKDYGVGKPLNQLAEAYEELK-----------KYEEA 428 (508)
T ss_pred cchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcc--cCcChhhhHHHHHHHHHHHHhc-----------ccchH
Confidence 10 00 0111111121 1223455666666777665543 2233445677788877775422 14557
Q ss_pred HHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhh
Q 027700 154 MLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVC 204 (220)
Q Consensus 154 ~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Af 204 (220)
.+.|.+|..+. ....|.||--++..+|.+.-| +-+|+.++|++++..+.
T Consensus 429 ~~l~~~~~~i~-~~~g~~~~~~~~~~~nL~~~Y-~~~g~~e~a~~~~~~~~ 477 (508)
T KOG1840|consen 429 EQLFEEAKDIM-KLCGPDHPDVTYTYLNLAALY-RAQGNYEAAEELEEKVL 477 (508)
T ss_pred HHHHHHHHHHH-HHhCCCCCchHHHHHHHHHHH-HHcccHHHHHHHHHHHH
Confidence 89999999999 789999999999999999865 55899999999987654
No 11
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=86.02 E-value=3.4 Score=27.62 Aligned_cols=47 Identities=17% Similarity=0.207 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhC-ChHHHHHHHHHhhc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILN-SSEKACTMAKQVCF 205 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~-~~~~A~~iAk~Afd 205 (220)
-+.|...|++|+++ +|-.-.+..|.++-|+. +| ++++|+...++|+.
T Consensus 19 ~~~A~~~~~~ai~~--------~p~~~~~~~~~g~~~~~-~~~~~~~A~~~~~~al~ 66 (69)
T PF13414_consen 19 YEEAIEYFEKAIEL--------DPNNAEAYYNLGLAYMK-LGKDYEEAIEDFEKALK 66 (69)
T ss_dssp HHHHHHHHHHHHHH--------STTHHHHHHHHHHHHHH-TTTHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHc--------CCCCHHHHHHHHHHHHH-hCccHHHHHHHHHHHHH
Confidence 46689999999875 34444578888988888 67 79999999988864
No 12
>PF04781 DUF627: Protein of unknown function (DUF627); InterPro: IPR006866 This domain represents the N-terminal region of several plant proteins of unknown function.
Probab=84.00 E-value=4.2 Score=31.60 Aligned_cols=57 Identities=12% Similarity=0.201 Sum_probs=39.2
Q ss_pred HHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccch-hHHHHHHHHHHHHHHHHHH
Q 027700 106 LKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGD-ERKAAAENTMLSYKAAQDI 163 (220)
Q Consensus 106 l~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~-~~~~~~~~a~~aY~~A~~~ 163 (220)
+++|.+.+... .+.++..|-+...|+.+..+|...++. -+....-.|.++|.+|..+
T Consensus 16 L~iied~i~~h-~~~~~~~~lh~~QG~if~~lA~~ten~d~k~~yLl~sve~~s~a~~L 73 (111)
T PF04781_consen 16 LEIIEDLISRH-GEDESSWLLHRLQGTIFYKLAKKTENPDVKFRYLLGSVECFSRAVEL 73 (111)
T ss_pred HHHHHHHHHHc-cCCCchHHHHHHHhHHHHHHHHhccCchHHHHHHHHhHHHHHHHhcc
Confidence 44554443322 223333477899999999999987654 5666788899999999754
No 13
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=80.65 E-value=1.7 Score=25.90 Aligned_cols=24 Identities=29% Similarity=0.385 Sum_probs=13.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHP 173 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~p 173 (220)
.+.|...|++|+++.+.-++|.||
T Consensus 18 ~~~A~~~~~~al~~~~~~~G~~Hp 41 (42)
T PF13374_consen 18 YEEALELLEEALEIRERLLGPDHP 41 (42)
T ss_dssp HHHHHHHHHHHHHHH---------
T ss_pred cchhhHHHHHHHHHHHHHhccccc
Confidence 467899999999999988899998
No 14
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=73.98 E-value=88 Score=30.23 Aligned_cols=28 Identities=7% Similarity=0.097 Sum_probs=22.0
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
.-...++.+..+.|+|++++..+++.+.
T Consensus 704 ~~~~~~~~~~~~~g~~~~A~~~~~~~~~ 731 (899)
T TIGR02917 704 LGFELEGDLYLRQKDYPAAIQAYRKALK 731 (899)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence 3445677888888889888888888876
No 15
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=73.66 E-value=3.6 Score=24.63 Aligned_cols=34 Identities=26% Similarity=0.388 Sum_probs=24.4
Q ss_pred HHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHH
Q 027700 156 SYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACT 198 (220)
Q Consensus 156 aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~ 198 (220)
+|++|++ +.|.|| ....|++++|+. .|+.++|++
T Consensus 1 ~y~kAie-----~~P~n~---~a~~nla~~~~~-~g~~~~A~~ 34 (34)
T PF13431_consen 1 CYKKAIE-----LNPNNA---EAYNNLANLYLN-QGDYEEAIA 34 (34)
T ss_pred ChHHHHH-----HCCCCH---HHHHHHHHHHHH-CcCHHhhcC
Confidence 3667764 446665 456788998887 799999863
No 16
>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H ....
Probab=72.39 E-value=7.1 Score=26.75 Aligned_cols=34 Identities=24% Similarity=0.222 Sum_probs=29.4
Q ss_pred CchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 172 HPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 172 ~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
||.......|.+..|++ +|+.++|+..-++|.+.
T Consensus 1 H~~~a~~~~~la~~~~~-~~~~~~A~~~~~~al~~ 34 (78)
T PF13424_consen 1 HPDTANAYNNLARVYRE-LGRYDEALDYYEKALDI 34 (78)
T ss_dssp -HHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHH
Confidence 78888899999999997 89999999999999876
No 17
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=69.64 E-value=9.8 Score=21.30 Aligned_cols=27 Identities=19% Similarity=0.385 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
-+..+|.+..+.|+++++++.++.++.
T Consensus 2 a~~~~a~~~~~~g~~~~A~~~~~~~~~ 28 (33)
T PF13174_consen 2 ALYRLARCYYKLGDYDEAIEYFQRLIK 28 (33)
T ss_dssp HHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence 356789999999999999999999997
No 18
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=67.00 E-value=1.7e+02 Score=30.80 Aligned_cols=26 Identities=19% Similarity=0.086 Sum_probs=16.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
.+.+|....+.|+|++++...+++..
T Consensus 512 ~L~lA~al~~~Gr~eeAi~~~rka~~ 537 (987)
T PRK09782 512 HRAVAYQAYQVEDYATALAAWQKISL 537 (987)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence 34456666667777777777766553
No 19
>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW. Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.
Probab=64.61 E-value=67 Score=25.14 Aligned_cols=57 Identities=18% Similarity=0.100 Sum_probs=36.4
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHH
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRII 68 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l 68 (220)
+-...++......|+|+++.+.+.+.++. +|. +..-...++..|-.. +....+...+
T Consensus 32 ~~~~~la~~~~~~~~~~~A~~~~~~~l~~---~p~-~~~~~~~la~~~~~~-~~~~~A~~~~ 88 (234)
T TIGR02521 32 KIRVQLALGYLEQGDLEVAKENLDKALEH---DPD-DYLAYLALALYYQQL-GELEKAEDSF 88 (234)
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHHHh---Ccc-cHHHHHHHHHHHHHc-CCHHHHHHHH
Confidence 34567788888899999999999999872 233 444445555555433 3334444444
No 20
>PF14559 TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN_B 3QOU_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 3FP3_A 3LCA_A ....
Probab=64.29 E-value=24 Score=23.17 Aligned_cols=48 Identities=10% Similarity=0.086 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIP 207 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~a 207 (220)
+.|.+.|++++.. +|-...+.++++..|+. .|+.++|..+-+++....
T Consensus 8 ~~A~~~~~~~l~~--------~p~~~~~~~~la~~~~~-~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 8 DEAIELLEKALQR--------NPDNPEARLLLAQCYLK-QGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HHHHHHHHHHHHH--------TTTSHHHHHHHHHHHHH-TT-HHHHHHHHHCCHGGG
T ss_pred HHHHHHHHHHHHH--------CCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHC
Confidence 4577777777642 34444555567788888 799999999888765543
No 21
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=63.88 E-value=21 Score=20.26 Aligned_cols=27 Identities=30% Similarity=0.553 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
-+..++++..+.|.++.++.++++.++
T Consensus 3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 3 AYYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 356789999999999999999999987
No 22
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=63.53 E-value=44 Score=27.22 Aligned_cols=73 Identities=22% Similarity=0.225 Sum_probs=49.1
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|.+|.|-|.-+..-.|......|.+.|.+..--.+.- +........-++-..+.+++|..+-++.+.-||..+
T Consensus 85 P~~T~E~R~~l~k~~k~~~E~~k~~iR~iR~~~~~~l-kk~~~~~~~s~D~~~~~~~~iq~l~~~~~~~id~~~ 157 (165)
T PF01765_consen 85 PPPTEERRKELVKQAKKIAEEAKVSIRNIRRDAMKKL-KKLKKSKEISEDDIKKLEKEIQKLTDKYIKKIDELL 157 (165)
T ss_dssp -SSSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHTTSS-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhhhccCCCCchhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 6799999999999999999999999999864332221 101111113455666777888888777777777643
No 23
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=63.15 E-value=21 Score=20.08 Aligned_cols=26 Identities=23% Similarity=0.517 Sum_probs=22.8
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+..++.+..+.|+|+++++++++.+.
T Consensus 4 ~~~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 4 WYYLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 56789999999999999999999987
No 24
>KOG4759 consensus Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=61.70 E-value=40 Score=30.05 Aligned_cols=71 Identities=25% Similarity=0.317 Sum_probs=52.3
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|+.|.|-|.-|+...+......|.|+|-+..-.-+...+... ..-++-..+++.||..+.++.+..+|..|
T Consensus 183 P~~T~E~Re~laK~~~~~~ee~K~slr~ir~~~~kk~~k~~~---~~~~D~vkkae~~l~~l~k~~v~~ld~ll 253 (263)
T KOG4759|consen 183 PPVTKESREKLAKVLKRYFEEYKQSLRKIRTKSIKKSKKNKK---SLSEDEVKKAEAELQKLAKDAVNKLDDLL 253 (263)
T ss_pred CCcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc---cCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 558899999999999999999999999886433332222111 13355667888999999999888888775
No 25
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=61.55 E-value=18 Score=21.48 Aligned_cols=26 Identities=15% Similarity=0.401 Sum_probs=21.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+..+|.+..+.|.|+.++++.++.+.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL~ 27 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQALA 27 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 46789999999999999999998553
No 26
>TIGR02917 PEP_TPR_lipo putative PEP-CTERM system TPR-repeat lipoprotein. This protein family occurs in strictly within a subset of Gram-negative bacterial species with the proposed PEP-CTERM/exosortase system, analogous to the LPXTG/sortase system common in Gram-positive bacteria. This protein occurs in a species if and only if a transmembrane histidine kinase (TIGR02916) and a DNA-binding response regulator (TIGR02915) also occur. The present of tetratricopeptide repeats (TPR) suggests protein-protein interaction, possibly for the regulation of PEP-CTERM protein expression, since many PEP-CTERM proteins in these genomes are preceded by a proposed DNA binding site for the response regulator.
Probab=57.85 E-value=1.8e+02 Score=28.02 Aligned_cols=61 Identities=21% Similarity=0.249 Sum_probs=47.8
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhh
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIE 72 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sie 72 (220)
+.++..|+.+..-|+|++++..+++.+. . +|+ +.+=+..+..+|-. .|....+...+....
T Consensus 23 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~-~--~p~-~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~ 83 (899)
T TIGR02917 23 ESLIEAAKSYLQKNKYKAAIIQLKNALQ-K--DPN-DAEARFLLGKIYLA-LGDYAAAEKELRKAL 83 (899)
T ss_pred HHHHHHHHHHHHcCChHhHHHHHHHHHH-h--CCC-CHHHHHHHHHHHHH-cCCHHHHHHHHHHHH
Confidence 4578889999999999999999999997 2 244 77788888888766 477777777776543
No 27
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=56.22 E-value=42 Score=26.53 Aligned_cols=69 Identities=14% Similarity=-0.003 Sum_probs=45.2
Q ss_pred hHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHH
Q 027700 122 SKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAK 201 (220)
Q Consensus 122 skvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk 201 (220)
....++-..|..+.-... .+.|...|+.|+.+. |.++.......|.++.+.. .|+.++|+....
T Consensus 33 ~~a~~~~~~g~~~~~~g~----------~~~A~~~~~~al~l~-----~~~~~~~~~~~~lg~~~~~-~g~~~eA~~~~~ 96 (168)
T CHL00033 33 KEAFTYYRDGMSAQSEGE----------YAEALQNYYEAMRLE-----IDPYDRSYILYNIGLIHTS-NGEHTKALEYYF 96 (168)
T ss_pred HHHHHHHHHHHHHHHcCC----------HHHHHHHHHHHHhcc-----ccchhhHHHHHHHHHHHHH-cCCHHHHHHHHH
Confidence 445555555655543321 456888888888753 2333344466777777666 799999999999
Q ss_pred Hhhcc
Q 027700 202 QVCFI 206 (220)
Q Consensus 202 ~Afd~ 206 (220)
+|...
T Consensus 97 ~Al~~ 101 (168)
T CHL00033 97 QALER 101 (168)
T ss_pred HHHHh
Confidence 88753
No 28
>COG0233 Frr Ribosome recycling factor [Translation, ribosomal structure and biogenesis]
Probab=55.91 E-value=60 Score=27.53 Aligned_cols=73 Identities=25% Similarity=0.235 Sum_probs=50.1
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|+||.|-|.=|.--.|...-.-|-|.|-+.---... -+..+.....-++-.++.++|+..+.++.+.-||..+
T Consensus 105 P~lTeErRkelvK~~k~~~EeakvaiRniRrda~d~-iKK~~K~~~isEDe~k~~e~~iQKlTd~yi~~iD~~~ 177 (187)
T COG0233 105 PPLTEERRKELVKVAKKYAEEAKVAVRNIRRDANDK-IKKLEKDKEISEDEVKKAEEEIQKLTDEYIKKIDELL 177 (187)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHhccCCcchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 789999999999888998888888888885211110 0101111123466677888888888888888888765
No 29
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=55.22 E-value=25 Score=23.42 Aligned_cols=49 Identities=18% Similarity=0.160 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcccc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPH 208 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai 208 (220)
+.|.++++.++. + +|-...+-++.+.+++. +|+.++|.....++....=
T Consensus 12 ~~A~~~~~~~l~-----~---~p~~~~~~~~~a~~~~~-~g~~~~A~~~l~~~l~~~p 60 (73)
T PF13371_consen 12 EEALEVLERALE-----L---DPDDPELWLQRARCLFQ-LGRYEEALEDLERALELSP 60 (73)
T ss_pred HHHHHHHHHHHH-----h---CcccchhhHHHHHHHHH-hccHHHHHHHHHHHHHHCC
Confidence 345555555543 2 45556677788888888 7999999998888775543
No 30
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=55.02 E-value=17 Score=25.42 Aligned_cols=44 Identities=14% Similarity=0.181 Sum_probs=20.6
Q ss_pred HHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHH
Q 027700 156 SYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQ 202 (220)
Q Consensus 156 aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~ 202 (220)
-|++|++..+. .+.+|..+....-++--+++ +|+.++|+..-++
T Consensus 40 ~y~~A~~~~~~--~~~~~~~~~~~~l~a~~~~~-l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 40 KYEEAIELLQK--LKLDPSNPDIHYLLARCLLK-LGKYEEAIKALEK 83 (84)
T ss_dssp HHHHHHHHHHC--HTHHHCHHHHHHHHHHHHHH-TT-HHHHHHHHHH
T ss_pred CHHHHHHHHHH--hCCCCCCHHHHHHHHHHHHH-hCCHHHHHHHHhc
Confidence 34555555543 33444334444444444444 5666666655443
No 31
>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional
Probab=54.95 E-value=53 Score=34.29 Aligned_cols=88 Identities=15% Similarity=0.051 Sum_probs=55.5
Q ss_pred HHhhhccCCCCCCCchHHHHHhhhcchhhhh-hhcccch--hHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHH-H
Q 027700 107 KLLDSHLVPSATAGESKVFYLKMKGDYYRYL-AEFKVGD--ERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALN-F 182 (220)
Q Consensus 107 ~lId~~Lip~~~~~eskvfy~KmkgDyyRYl-aE~~~~~--~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN-~ 182 (220)
+++|. .|...+.....||++..|||+.-. |-+.-++ ++-.-.++|..+|+++++ +.|.||. +|| |
T Consensus 88 ~~l~~--~~~~~~~~~ve~~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~-----~D~~n~~----aLNn~ 156 (906)
T PRK14720 88 NLIDS--FSQNLKWAIVEHICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVK-----ADRDNPE----IVKKL 156 (906)
T ss_pred hhhhh--cccccchhHHHHHHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHh-----cCcccHH----HHHHH
Confidence 55553 344445566778888888876432 2222111 222235678889998885 4477864 455 4
Q ss_pred HHHHHHHhCChHHHHHHHHHhhccc
Q 027700 183 SVFYYEILNSSEKACTMAKQVCFIP 207 (220)
Q Consensus 183 SVF~yEi~~~~~~A~~iAk~Afd~a 207 (220)
+-+|-+ . +.++|.+++++|...=
T Consensus 157 AY~~ae-~-dL~KA~~m~~KAV~~~ 179 (906)
T PRK14720 157 ATSYEE-E-DKEKAITYLKKAIYRF 179 (906)
T ss_pred HHHHHH-h-hHHHHHHHHHHHHHHH
Confidence 555555 4 9999999999997653
No 32
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=54.32 E-value=31 Score=21.25 Aligned_cols=27 Identities=11% Similarity=0.241 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
-+..+|+...+.|+++++.+.++++++
T Consensus 3 ~~~~la~~~~~~G~~~~A~~~~~~~l~ 29 (44)
T PF13428_consen 3 AWLALARAYRRLGQPDEAERLLRRALA 29 (44)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 357789999999999999999999997
No 33
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=53.51 E-value=40 Score=21.98 Aligned_cols=53 Identities=19% Similarity=0.147 Sum_probs=35.0
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHH
Q 027700 11 YLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRII 68 (220)
Q Consensus 11 ~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l 68 (220)
.+|...-+.|+|++++..+++++. . .+-+.+=+..+..++- ..+....|...+
T Consensus 2 ~~a~~~~~~g~~~~A~~~~~~~l~-~---~P~~~~a~~~lg~~~~-~~g~~~~A~~~~ 54 (65)
T PF13432_consen 2 ALARALYQQGDYDEAIAAFEQALK-Q---DPDNPEAWYLLGRILY-QQGRYDEALAYY 54 (65)
T ss_dssp HHHHHHHHCTHHHHHHHHHHHHHC-C---STTHHHHHHHHHHHHH-HTT-HHHHHHHH
T ss_pred hHHHHHHHcCCHHHHHHHHHHHHH-H---CCCCHHHHHHHHHHHH-HcCCHHHHHHHH
Confidence 467888899999999999999997 2 2336666666666654 334333443333
No 34
>cd00520 RRF Ribosome recycling factor (RRF). Ribosome recycling factor dissociates the posttermination complex, composed of the ribosome, deacylated tRNA, and mRNA, after termination of translation. Thus ribosomes are "recycled" and ready for another round of protein synthesis. RRF is believed to bind the ribosome at the A-site in a manner that mimics tRNA, but the specific mechanisms remain unclear. RRF is essential for bacterial growth. It is not necessary for cell growth in archaea or eukaryotes, but is found in mitochondria or chloroplasts of some eukaryotic species.
Probab=52.88 E-value=58 Score=27.06 Aligned_cols=73 Identities=25% Similarity=0.266 Sum_probs=45.7
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|++|.|-|.=|....|...-.-|.+.|.+..--.+.- +........-++-.++.++|+..+.++.+.-||..+
T Consensus 99 P~lT~E~R~~lvK~~k~~~E~~Kv~iRniR~~~~~~l-Kk~~k~~~iseD~~k~~~~~iqkltd~~i~~id~~~ 171 (179)
T cd00520 99 PPLTEERRKELVKDAKKIAEEAKVAIRNIRRDANDKI-KKLEKEKEISEDEVKKAEEDLQKLTDEYIKKIDELL 171 (179)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHhhccCCCCchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999998888888888888888888753111110 000000012244556667777777777777776654
No 35
>TIGR00496 frr ribosome recycling factor. This model finds only eubacterial proteins. Mitochondrial and/or chloroplast forms might be expected but are not currently known. This protein was previously called ribosome releasing factor. By releasing ribosomes from mRNA at the end of protein biosynthesis, it prevents inappropriate translation from 3-prime regions of the mRNA and frees the ribosome for new rounds of translation. EGAD|53116|YHR038W is part of the frr superfamily.
Probab=52.60 E-value=68 Score=26.66 Aligned_cols=73 Identities=21% Similarity=0.263 Sum_probs=46.4
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|+||.|-|.=|.-..|...-.-|.+.|-+..--.+.- +........-++-.++.++|+..+.++.+.-||..+
T Consensus 94 P~lT~E~RkelvK~~k~~~E~aKv~iRniRr~~~~~i-Kk~~k~~~iseD~~k~~~~~iQkltd~~i~~id~~~ 166 (176)
T TIGR00496 94 PPLTEERRKELVKHAKKIAEQAKVAVRNVRRDANDKV-KKLEKDKEISEDEERRLQEEIQKLTDEYIKKIDEIL 166 (176)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhcCCCChhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999999998889988888888888753111100 000000012245566677777777777777777654
No 36
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=52.42 E-value=27 Score=24.32 Aligned_cols=45 Identities=22% Similarity=0.451 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHH
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQ 202 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~ 202 (220)
+.|...|+++++. .|++| .-...++.+.-||. .|+.++|+.+.++
T Consensus 6 ~~Ai~~~~k~~~~-----~~~~~-~~~~~~~la~~~~~-~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 6 ENAIKYYEKLLEL-----DPTNP-NSAYLYNLAQCYFQ-QGKYEEAIELLQK 50 (84)
T ss_dssp HHHHHHHHHHHHH-----HCGTH-HHHHHHHHHHHHHH-TTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHH-----CCCCh-hHHHHHHHHHHHHH-CCCHHHHHHHHHH
Confidence 4455666666543 34455 55567777888888 7999999999877
No 37
>PF05010 TACC: Transforming acidic coiled-coil-containing protein (TACC); InterPro: IPR007707 This family contains the proteins TACC 1, 2 and 3, found concentrated in the centrosomes of eukaryotes which may play a conserved role in organising centrosomal microtubules. The human TACC proteins have been linked to cancer and TACC2 has been identified as a possible tumour suppressor (AZU-1) [].
Probab=51.19 E-value=95 Score=26.64 Aligned_cols=84 Identities=17% Similarity=0.293 Sum_probs=47.0
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHH
Q 027700 11 YLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDY 90 (220)
Q Consensus 11 ~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~y 90 (220)
|++++..+-.||+-+-.....-+ +..++|..-+-..++.=+...+..+|--.. +-.+.... -+-
T Consensus 123 y~~~l~~~eqry~aLK~hAeekL-------~~ANeei~~v~~~~~~e~~aLqa~lkk~e~-------~~~SLe~~--LeQ 186 (207)
T PF05010_consen 123 YEERLKKEEQRYQALKAHAEEKL-------EKANEEIAQVRSKHQAELLALQASLKKEEM-------KVQSLEES--LEQ 186 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-------HHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-------HHHHHHHH--HHH
Confidence 56677777777765544433322 344566666666677777777777766421 00000000 011
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 027700 91 RSKVESELSDVCGSILKLLD 110 (220)
Q Consensus 91 k~ki~~EL~~~C~eil~lId 110 (220)
+.+=..||..||+|+|.=++
T Consensus 187 K~kEn~ELtkICDeLI~k~~ 206 (207)
T PF05010_consen 187 KTKENEELTKICDELISKMG 206 (207)
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 22334899999999887543
No 38
>PRK00083 frr ribosome recycling factor; Reviewed
Probab=50.79 E-value=75 Score=26.64 Aligned_cols=73 Identities=23% Similarity=0.244 Sum_probs=46.2
Q ss_pred CCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Q 027700 40 TELTVEERNLLSVAYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVESELSDVCGSILKLLDSHL 113 (220)
Q Consensus 40 ~~Ls~eERnLlsvayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~~EL~~~C~eil~lId~~L 113 (220)
|+||.|-|.=|....|...-.-|.+.|.+..--.+.- +........-++-.++.++|+..+.++.+.-||..+
T Consensus 103 P~lT~E~R~elvK~~k~~~E~aKv~iRniRr~~~~~i-Kk~~k~~~iseD~~k~~e~eiQkltd~~i~~id~~~ 175 (185)
T PRK00083 103 PPLTEERRKELVKQVKKEAEEAKVAIRNIRRDANDKL-KKLEKDKEISEDELKRAEDEIQKLTDKYIKKIDELL 175 (185)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhcCCCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 7899999998888889888888888888853211110 000000012245556677777777777777777654
No 39
>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF. Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.
Probab=50.60 E-value=46 Score=23.70 Aligned_cols=52 Identities=21% Similarity=0.148 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIP 207 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~a 207 (220)
.+.|.+.|+.+.. ..|.||......++.+..++. +|+.++|...-.++.+..
T Consensus 55 ~~~A~~~~~~~~~-----~~p~~~~~~~~~~~~~~~~~~-~~~~~~A~~~~~~~~~~~ 106 (119)
T TIGR02795 55 YADAAKAFLAVVK-----KYPKSPKAPDALLKLGMSLQE-LGDKEKAKATLQQVIKRY 106 (119)
T ss_pred HHHHHHHHHHHHH-----HCCCCCcccHHHHHHHHHHHH-hCChHHHHHHHHHHHHHC
Confidence 3457777777764 346776555556666666666 899999999988877653
No 40
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=47.46 E-value=75 Score=25.28 Aligned_cols=51 Identities=16% Similarity=0.153 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
.+.|...|++|+++.. .+|-..-...|.++-++. +|+.++|+....+|++.
T Consensus 51 ~~~A~~~~~~al~~~~-----~~~~~~~~~~~la~~~~~-~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 51 YAEALENYEEALKLEE-----DPNDRSYILYNMGIIYAS-NGEHDKALEYYHQALEL 101 (172)
T ss_pred HHHHHHHHHHHHHHhh-----ccchHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHh
Confidence 3467888888877542 233233456777777777 79999999998888774
No 41
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=46.26 E-value=49 Score=18.67 Aligned_cols=26 Identities=23% Similarity=0.349 Sum_probs=22.4
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+..++.+..+.|+|++++.+.++.++
T Consensus 4 ~~~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 4 YYNLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCchHHHHHHHHHHH
Confidence 45688889999999999999999997
No 42
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=44.64 E-value=4.1e+02 Score=28.19 Aligned_cols=27 Identities=30% Similarity=0.295 Sum_probs=24.3
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
..+.+|++.-..|+|++++..+++++.
T Consensus 114 ~~l~~A~ll~~~g~~~eA~~~~~~~l~ 140 (1157)
T PRK11447 114 QALQQARLLATTGRTEEALASYDKLFN 140 (1157)
T ss_pred hHHHHHHHHHhCCCHHHHHHHHHHHcc
Confidence 457889999999999999999999986
No 43
>TIGR00990 3a0801s09 mitochondrial precursor proteins import receptor (72 kDa mitochondrial outermembrane protein) (mitochondrial import receptor for the ADP/ATP carrier) (translocase of outermembrane tom70).
Probab=44.11 E-value=3.1e+02 Score=26.60 Aligned_cols=51 Identities=8% Similarity=0.051 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHG 209 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~ 209 (220)
.+.|.+.|++|+. +.|.++. ..++.+-.++. .|+.++|+..-.+|.+.+-+
T Consensus 524 ~~eA~~~~~kAl~-----l~p~~~~---a~~~la~~~~~-~g~~~eAi~~~e~A~~l~~~ 574 (615)
T TIGR00990 524 FIEAENLCEKALI-----IDPECDI---AVATMAQLLLQ-QGDVDEALKLFERAAELART 574 (615)
T ss_pred HHHHHHHHHHHHh-----cCCCcHH---HHHHHHHHHHH-ccCHHHHHHHHHHHHHHhcc
Confidence 3456667777664 4566654 23445566666 89999999999888776654
No 44
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=42.88 E-value=35 Score=34.03 Aligned_cols=69 Identities=10% Similarity=0.094 Sum_probs=47.9
Q ss_pred hhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhc
Q 027700 128 KMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCF 205 (220)
Q Consensus 128 KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd 205 (220)
++-|+.||-+.....---|++--+.|+-.|+.|.+ +||.-.-+.--.+.+++. +|..++|+++-++|+-
T Consensus 483 ~~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--------INP~nsvi~~~~g~~~~~-~k~~d~AL~~~~~A~~ 551 (638)
T KOG1126|consen 483 GVDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--------INPSNSVILCHIGRIQHQ-LKRKDKALQLYEKAIH 551 (638)
T ss_pred cCCchhhHHHHhhhhheeccchhhHHHHHHHhhhc--------CCccchhHHhhhhHHHHH-hhhhhHHHHHHHHHHh
Confidence 56677777666555444444445666777777764 456656666667788777 8999999999998873
No 45
>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals. A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.
Probab=41.65 E-value=2.4e+02 Score=24.60 Aligned_cols=29 Identities=21% Similarity=0.178 Sum_probs=18.8
Q ss_pred hHHHHHHHHHHHHHHhCChHHHHHHHHHhh
Q 027700 175 RLGLALNFSVFYYEILNSSEKACTMAKQVC 204 (220)
Q Consensus 175 rLgL~LN~SVF~yEi~~~~~~A~~iAk~Af 204 (220)
+.....+.+.++.. .|+.++|..+.+++.
T Consensus 185 ~~~~~~~la~~~~~-~G~~~~A~~~~~~~~ 213 (355)
T cd05804 185 RGHNWWHLALFYLE-RGDYEAALAIYDTHI 213 (355)
T ss_pred hHHHHHHHHHHHHH-CCCHHHHHHHHHHHh
Confidence 33445566666555 677777777777764
No 46
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=40.33 E-value=4e+02 Score=26.84 Aligned_cols=25 Identities=24% Similarity=0.211 Sum_probs=12.0
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 10 VYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 10 i~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
..+|.+.-..|++++++..+++++.
T Consensus 87 ~~la~~l~~~g~~~eA~~~l~~~l~ 111 (765)
T PRK10049 87 RGLILTLADAGQYDEALVKAKQLVS 111 (765)
T ss_pred HHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3444444444555555555555444
No 47
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=36.90 E-value=1.6e+02 Score=22.81 Aligned_cols=50 Identities=14% Similarity=0.131 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
+.|...|++|+.. .| +.|.|-+..++.+--+-. +|++++|..+-+++...
T Consensus 18 ~~Ai~~Y~~Al~~---gL--~~~~~~~a~i~lastlr~-LG~~deA~~~L~~~~~~ 67 (120)
T PF12688_consen 18 EEAIPLYRRALAA---GL--SGADRRRALIQLASTLRN-LGRYDEALALLEEALEE 67 (120)
T ss_pred HHHHHHHHHHHHc---CC--CchHHHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHH
Confidence 5688889999752 33 455555666666555554 79999999998887754
No 48
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=36.84 E-value=94 Score=20.11 Aligned_cols=46 Identities=9% Similarity=0.115 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCF 205 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd 205 (220)
+.|...|+++++ .+|-.-..-+..+..++. .|++++|...-+++.+
T Consensus 14 ~~A~~~~~~~l~--------~~P~~~~a~~~lg~~~~~-~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 14 DEAIAAFEQALK--------QDPDNPEAWYLLGRILYQ-QGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHHHHHC--------CSTTHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHH--------HCCCCHHHHHHHHHHHHH-cCCHHHHHHHHHHHHH
Confidence 456666666653 335555566667777776 8999999988777654
No 49
>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=35.75 E-value=54 Score=28.99 Aligned_cols=48 Identities=19% Similarity=0.201 Sum_probs=36.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
.+.|.++|++|+.++ |-+ =-+--||.-|+.. .|.+++|.+.=.+|..+
T Consensus 85 ~~~A~e~YrkAlsl~-----p~~---GdVLNNYG~FLC~-qg~~~eA~q~F~~Al~~ 132 (250)
T COG3063 85 NDLADESYRKALSLA-----PNN---GDVLNNYGAFLCA-QGRPEEAMQQFERALAD 132 (250)
T ss_pred hhhHHHHHHHHHhcC-----CCc---cchhhhhhHHHHh-CCChHHHHHHHHHHHhC
Confidence 567899999998654 222 2244589999999 67999999887777655
No 50
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=34.76 E-value=1.4e+02 Score=23.20 Aligned_cols=49 Identities=14% Similarity=0.063 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIP 207 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~a 207 (220)
.+.|..+|+.|+. +.|.||- ...|.++-+.. +|++++|+....+|....
T Consensus 74 ~~~A~~~y~~Al~-----l~p~~~~---a~~~lg~~l~~-~g~~~eAi~~~~~Al~~~ 122 (144)
T PRK15359 74 YTTAINFYGHALM-----LDASHPE---PVYQTGVCLKM-MGEPGLAREAFQTAIKMS 122 (144)
T ss_pred HHHHHHHHHHHHh-----cCCCCcH---HHHHHHHHHHH-cCCHHHHHHHHHHHHHhC
Confidence 4568899999875 4566652 22333344443 899999999888886543
No 51
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=34.70 E-value=2.5e+02 Score=23.88 Aligned_cols=70 Identities=16% Similarity=0.080 Sum_probs=44.3
Q ss_pred hcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhc
Q 027700 130 KGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCF 205 (220)
Q Consensus 130 kgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd 205 (220)
-+=.||.+-+ .+.-+.+..+|.+.|++|++.- ..|.+.--...+..=-+-.++. +|+.++|.+--...+.
T Consensus 124 lAWlyR~~~~---~~~E~~fl~~Al~~y~~a~~~e--~~~~~~~~~~~l~YLigeL~rr-lg~~~eA~~~fs~vi~ 193 (214)
T PF09986_consen 124 LAWLYRDLGD---EENEKRFLRKALEFYEEAYENE--DFPIEGMDEATLLYLIGELNRR-LGNYDEAKRWFSRVIG 193 (214)
T ss_pred HHHHhhccCC---HHHHHHHHHHHHHHHHHHHHhC--cCCCCCchHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHc
Confidence 4556666654 3445568999999999999753 3443333333344444555555 7999988876655443
No 52
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=34.64 E-value=1.2e+02 Score=23.77 Aligned_cols=46 Identities=22% Similarity=0.105 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHH------HHhCChHHHHHHHHHh
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYY------EILNSSEKACTMAKQV 203 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~y------Ei~~~~~~A~~iAk~A 203 (220)
.+.|...|++|+.+ .|.++ +...|.++.++ .-+|+.+.|....++|
T Consensus 88 ~~eA~~~~~~Al~~-----~~~~~---~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~a 139 (168)
T CHL00033 88 HTKALEYYFQALER-----NPFLP---QALNNMAVICHYRGEQAIEQGDSEIAEAWFDQA 139 (168)
T ss_pred HHHHHHHHHHHHHh-----CcCcH---HHHHHHHHHHHHhhHHHHHcccHHHHHHHHHHH
Confidence 45688889888864 33332 33445555555 1267877665555444
No 53
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=34.32 E-value=4.5e+02 Score=25.62 Aligned_cols=69 Identities=20% Similarity=0.160 Sum_probs=47.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhcCCC------CCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccccchh
Q 027700 144 DERKAAAENTMLSYKAAQDIALTDLAP------THPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGCQRL 213 (220)
Q Consensus 144 ~~~~~~~~~a~~aY~~A~~~a~~~L~p------t~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~~ 213 (220)
.+|..+++.-...|...++... .+++ ..|.-+--++.|---+|+.+|+.++|.+...+|++--=...||
T Consensus 156 ~~K~~~i~~l~~~~~~~l~~~~-~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~el 230 (517)
T PF12569_consen 156 PEKAAIIESLVEEYVNSLESNG-SFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVEL 230 (517)
T ss_pred hhHHHHHHHHHHHHHHhhcccC-CCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHH
Confidence 4566677776777766554332 3332 3466666777777778999999999999999888765444444
No 54
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=34.05 E-value=67 Score=16.02 Aligned_cols=26 Identities=12% Similarity=0.263 Sum_probs=22.2
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+..++.+..+.++|++++.++.+.+.
T Consensus 4 ~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 4 LYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred HHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 45678888889999999999998886
No 55
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=33.99 E-value=1.1e+02 Score=27.85 Aligned_cols=25 Identities=12% Similarity=0.003 Sum_probs=12.6
Q ss_pred HHHHHHHHHHhCChHHHHHHHHHhhc
Q 027700 180 LNFSVFYYEILNSSEKACTMAKQVCF 205 (220)
Q Consensus 180 LN~SVF~yEi~~~~~~A~~iAk~Afd 205 (220)
++.++.++. +|+.+.|+...++|..
T Consensus 74 ~~lg~~~~~-lg~~~eA~~~~~~al~ 98 (356)
T PLN03088 74 LRKGTACMK-LEEYQTAKAALEKGAS 98 (356)
T ss_pred HHHHHHHHH-hCCHHHHHHHHHHHHH
Confidence 333444444 4666666655555543
No 56
>KOG1679 consensus Enoyl-CoA hydratase [Lipid transport and metabolism]
Probab=32.86 E-value=45 Score=29.30 Aligned_cols=38 Identities=26% Similarity=0.428 Sum_probs=24.0
Q ss_pred hhhhcccchhHHH------HHHH---HHHHHHHHHHHHhhcCCCCCch
Q 027700 136 YLAEFKVGDERKA------AAEN---TMLSYKAAQDIALTDLAPTHPI 174 (220)
Q Consensus 136 YlaE~~~~~~~~~------~~~~---a~~aY~~A~~~a~~~L~pt~pi 174 (220)
|-+++.+|.+-.. +++. ...+|++|+++|+ ++-|.-|+
T Consensus 190 ftarvl~g~eA~~lGlVnhvv~qneegdaa~~kal~lA~-eilp~gPi 236 (291)
T KOG1679|consen 190 FTARVLNGAEAAKLGLVNHVVEQNEEGDAAYQKALELAR-EILPQGPI 236 (291)
T ss_pred hhheeccchhHHhcchHHHHHhcCccccHHHHHHHHHHH-HhccCCch
Confidence 4566666654322 2221 2379999999998 46667775
No 57
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=31.88 E-value=2.4e+02 Score=23.32 Aligned_cols=11 Identities=27% Similarity=0.733 Sum_probs=5.5
Q ss_pred Hhhhcchhhhh
Q 027700 127 LKMKGDYYRYL 137 (220)
Q Consensus 127 ~KmkgDyyRYl 137 (220)
|-+.|..|...
T Consensus 76 w~~Lg~~~~~~ 86 (198)
T PRK10370 76 WALLGEYYLWR 86 (198)
T ss_pred HHHHHHHHHHC
Confidence 44456555433
No 58
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=31.13 E-value=6.7e+02 Score=26.65 Aligned_cols=55 Identities=11% Similarity=-0.076 Sum_probs=33.6
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHh
Q 027700 11 YLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISS 70 (220)
Q Consensus 11 ~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~s 70 (220)
.++.++-..|++++++..+++++.. +|. +..=...|..+|.. .+....+.+.+..
T Consensus 356 ~~g~~~~~~g~~~eA~~~~~~Al~~---~P~-~~~a~~~Lg~~~~~-~g~~~eA~~~y~~ 410 (1157)
T PRK11447 356 QQGDAALKANNLAQAERLYQQARQV---DNT-DSYAVLGLGDVAMA-RKDYAAAERYYQQ 410 (1157)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHh---CCC-CHHHHHHHHHHHHH-CCCHHHHHHHHHH
Confidence 3456667789999999999999972 243 23333445555532 3445555555543
No 59
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=31.11 E-value=96 Score=19.84 Aligned_cols=40 Identities=18% Similarity=0.230 Sum_probs=30.1
Q ss_pred HHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHH
Q 027700 10 VYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLS 51 (220)
Q Consensus 10 i~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLls 51 (220)
+.+|+..-..|.++.+-+.+.+++. .++++.-.+=+.||.
T Consensus 3 LdLA~ayie~Gd~e~Ar~lL~evl~--~~~~~q~~eA~~LL~ 42 (44)
T TIGR03504 3 LDLARAYIEMGDLEGARELLEEVIE--EGDEAQRQEARALLA 42 (44)
T ss_pred hHHHHHHHHcCChHHHHHHHHHHHH--cCCHHHHHHHHHHHh
Confidence 4689999999999999999999996 223444555555653
No 60
>PF03755 YicC_N: YicC-like family, N-terminal region ; InterPro: IPR013527 Proteins in this entry are homologues of YicC (P23839 from SWISSPROT) from Escherichia coli. Although it is relatively poorly characterised YicC has been shown to be important for cells in the stationary phase, and essential for growth at high temperatures []. This domain is found at the N-terminal region of these proteins.
Probab=30.11 E-value=47 Score=26.86 Aligned_cols=61 Identities=16% Similarity=0.034 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHhhcCCCCCchhHHHHHHH-HHHH-HHHhC--ChHHHHHHHHHhhccccccch
Q 027700 152 NTMLSYKAAQDIALTDLAPTHPIRLGLALNF-SVFY-YEILN--SSEKACTMAKQVCFIPHGCQR 212 (220)
Q Consensus 152 ~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~-SVF~-yEi~~--~~~~A~~iAk~Afd~ai~~~~ 212 (220)
....+|-+++.-....++...|+.++..|.+ .||. .+-.. ..+..-.....+++.|+.++.
T Consensus 82 ~l~~~y~~~l~~l~~~~~~~~~~~~~~ll~~p~v~~~~~~~~~~~~e~~~~~l~~~l~~AL~~l~ 146 (159)
T PF03755_consen 82 ELAKAYYEALKELAEELGLAGPISLDDLLRLPGVLKVEEEEDEEEEEELWEALLEALEEALDELI 146 (159)
T ss_pred HHHHHHHHHHHHHHHHcCCCCCCCHHHHHcCCCcccccCCCCcchHHHHHHHHHHHHHHHHHHHH
Confidence 3466677776666667888889999999999 5665 33111 222344678888888887653
No 61
>COG1849 Uncharacterized protein conserved in archaea [Function unknown]
Probab=29.10 E-value=1.4e+02 Score=22.41 Aligned_cols=36 Identities=14% Similarity=0.180 Sum_probs=28.3
Q ss_pred hHHHHHHH---HHHHHHHhCChHHHHHHHHHhhccccccchhhh
Q 027700 175 RLGLALNF---SVFYYEILNSSEKACTMAKQVCFIPHGCQRLII 215 (220)
Q Consensus 175 rLgL~LN~---SVF~yEi~~~~~~A~~iAk~Afd~ai~~~~~~~ 215 (220)
-+-+|.+| |.|||+ .||+-.|. .++..|+.|+|--.
T Consensus 37 ~~~ma~~Y~~Dakyf~e-kGD~vtAf----a~~sYa~g~lDag~ 75 (90)
T COG1849 37 FVDMAESYFEDAKYFLE-KGDYVTAF----AALSYAHGWLDAGV 75 (90)
T ss_pred HHHHHHHHHHHHHHHHH-cCcHHHHH----HHHHHHHHHHHHHH
Confidence 56678888 999999 79998876 57788888887543
No 62
>PF08424 NRDE-2: NRDE-2, necessary for RNA interference; InterPro: IPR013633 This is domain is found in eukaryotic proteins of unknown function.
Probab=29.05 E-value=1.7e+02 Score=26.24 Aligned_cols=56 Identities=13% Similarity=0.103 Sum_probs=41.3
Q ss_pred HHHHHHHHHHHHHHHhhc----------CCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTD----------LAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~----------L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
+....+.|.+++...... .+.+.-..|-+.+++++|..+ .|..+.|+.+.|..++.
T Consensus 118 v~~~~~~y~~~l~~L~~~~~~~~~~~~~~~~~e~~~l~v~~r~~~fl~~-aG~~E~Ava~~Qa~lE~ 183 (321)
T PF08424_consen 118 VSDVRDVYEKCLRALSRRRSGRMTSHPDLPELEEFMLYVFLRLCRFLRQ-AGYTERAVALWQALLEF 183 (321)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccchhhHHHHHHHHHHHHHHHHHH-CCchHHHHHHHHHHHHH
Confidence 344566666666655432 333466889999999999999 79999999999876653
No 63
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=28.24 E-value=6.3e+02 Score=25.46 Aligned_cols=26 Identities=8% Similarity=0.242 Sum_probs=19.6
Q ss_pred HHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 9 YVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 9 li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+..+|.++...|++++++..+++++.
T Consensus 52 ~~~lA~~~~~~g~~~~A~~~~~~al~ 77 (765)
T PRK10049 52 YAAVAVAYRNLKQWQNSLTLWQKALS 77 (765)
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 56777777777777777777777775
No 64
>PRK15326 type III secretion system needle complex protein PrgI; Provisional
Probab=27.93 E-value=1.6e+02 Score=21.59 Aligned_cols=45 Identities=16% Similarity=0.208 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHH----HHHHHHHHHHHHhCChHHHH
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLG----LALNFSVFYYEILNSSEKAC 197 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLg----L~LN~SVF~yEi~~~~~~A~ 197 (220)
+....+.-+.|++-- +..|.||..|+ +.-+|++|+- +-.+.-||+
T Consensus 20 a~~~~~~l~~Al~~l--~~~pdnP~~LA~~Qa~l~eyn~~RN-aQSn~iKa~ 68 (80)
T PRK15326 20 VDNLQTQVTEALDKL--AAKPSDPALLAAYQSKLSEYNLYRN-AQSNTVKVF 68 (80)
T ss_pred HHHHHHHHHHHHHHh--hcCCCCHHHHHHHHHHHHHHHHHHH-HHHHHHHHH
Confidence 444555566666432 58999999998 5667777643 233444444
No 65
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.55 E-value=2e+02 Score=25.94 Aligned_cols=87 Identities=23% Similarity=0.329 Sum_probs=58.4
Q ss_pred HHHHhhhccCCCCCCCchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHH
Q 027700 105 ILKLLDSHLVPSATAGESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSV 184 (220)
Q Consensus 105 il~lId~~Lip~~~~~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SV 184 (220)
++.-+..+|=.+..+.|. |=|-|-+|...-++ ..|..+|..|.. |.|-||-++|..- -+
T Consensus 141 l~a~Le~~L~~nP~d~eg----W~~Lg~~ym~~~~~----------~~A~~AY~~A~r-----L~g~n~~~~~g~a--ea 199 (287)
T COG4235 141 LIARLETHLQQNPGDAEG----WDLLGRAYMALGRA----------SDALLAYRNALR-----LAGDNPEILLGLA--EA 199 (287)
T ss_pred HHHHHHHHHHhCCCCchh----HHHHHHHHHHhcch----------hHHHHHHHHHHH-----hCCCCHHHHHHHH--HH
Confidence 444556666666667777 56688888777653 458999999985 6678887766432 34
Q ss_pred HHHHH-hCChHHHHHHHHHhhccccccch
Q 027700 185 FYYEI-LNSSEKACTMAKQVCFIPHGCQR 212 (220)
Q Consensus 185 F~yEi-~~~~~~A~~iAk~Afd~ai~~~~ 212 (220)
++|-- -.++.+|..+.++|...=..+++
T Consensus 200 L~~~a~~~~ta~a~~ll~~al~~D~~~ir 228 (287)
T COG4235 200 LYYQAGQQMTAKARALLRQALALDPANIR 228 (287)
T ss_pred HHHhcCCcccHHHHHHHHHHHhcCCccHH
Confidence 44442 23677888888888776666654
No 66
>cd02683 MIT_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in proteins with unknown function, co-occuring with an as yet undescribed domain. The molecular function of the MIT domain is unclear.
Probab=27.49 E-value=1.5e+02 Score=21.03 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=22.4
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
-+++..|--.+++|+|++++.+-.+.++
T Consensus 7 ~~l~~~Ave~D~~g~y~eAl~~Y~~aie 34 (77)
T cd02683 7 KEVLKRAVELDQEGRFQEALVCYQEGID 34 (77)
T ss_pred HHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 3567777778999999999988877765
No 67
>PF10516 SHNi-TPR: SHNi-TPR; InterPro: IPR019544 The tetratrico peptide repeat region (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. This entry represents SHNi-TPR (Sim3-Hif1-NASP interrupted TPR), a sequence that is an interrupted form of TPR repeat [].
Probab=27.48 E-value=77 Score=19.66 Aligned_cols=37 Identities=30% Similarity=0.460 Sum_probs=26.0
Q ss_pred chhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCC
Q 027700 132 DYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPT 171 (220)
Q Consensus 132 DyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt 171 (220)
|.|-=++|+.-..++ -++|.+=|++|+++-++.+||.
T Consensus 2 dv~~~Lgeisle~e~---f~qA~~D~~~aL~i~~~l~~~~ 38 (38)
T PF10516_consen 2 DVYDLLGEISLENEN---FEQAIEDYEKALEIQEELLPPE 38 (38)
T ss_pred cHHHHHHHHHHHhcc---HHHHHHHHHHHHHHHHHhcCCC
Confidence 455556777655543 3567888999999988777763
No 68
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=27.35 E-value=1.6e+02 Score=24.14 Aligned_cols=49 Identities=16% Similarity=0.251 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 152 NTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 152 ~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
.|...|++++. +.|.+|..-...++.+..++. .|++++|+...+++...
T Consensus 51 ~A~~~~~~~~~-----~~p~~~~~~~a~~~la~~~~~-~~~~~~A~~~~~~~l~~ 99 (235)
T TIGR03302 51 EAIKYFEALES-----RYPFSPYAEQAQLDLAYAYYK-SGDYAEAIAAADRFIRL 99 (235)
T ss_pred HHHHHHHHHHH-----hCCCchhHHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHH
Confidence 45666666543 556777544444555555666 79999999999987654
No 69
>PF14490 HHH_4: Helix-hairpin-helix containing domain; PDB: 3GPL_A 3E1S_A 3GP8_A.
Probab=27.22 E-value=1.1e+02 Score=22.26 Aligned_cols=48 Identities=25% Similarity=0.406 Sum_probs=29.2
Q ss_pred HhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhh-cCCCCCchhHHHHHHHHHHH
Q 027700 127 LKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALT-DLAPTHPIRLGLALNFSVFY 186 (220)
Q Consensus 127 ~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~-~L~pt~pirLgL~LN~SVF~ 186 (220)
.+++.|=|+-+.++..= .++.|-++|.+ .+++.||-|+.-++-+.+..
T Consensus 38 ~~l~~nPY~L~~~i~gi------------~F~~aD~iA~~~g~~~~d~~Ri~A~i~~~L~~ 86 (94)
T PF14490_consen 38 EILKENPYRLIEDIDGI------------GFKTADKIALKLGIEPDDPRRIRAAILYVLRE 86 (94)
T ss_dssp HHHHH-STCCCB-SSSS------------BHHHHHHHHHTTT--TT-HHHHHHHHHHHHHH
T ss_pred HHHHHChHHHHHHccCC------------CHHHHHHHHHHcCCCCCCHHHHHHHHHHHHHH
Confidence 45566667766655221 15556667755 79999999999999887765
No 70
>PRK11189 lipoprotein NlpI; Provisional
Probab=26.82 E-value=1.7e+02 Score=25.72 Aligned_cols=47 Identities=17% Similarity=0.083 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
+.|..+|+.|+ .+.|.++.-+ +|.++.+|. .|+.++|++..++++..
T Consensus 115 ~~A~~~~~~Al-----~l~P~~~~a~---~~lg~~l~~-~g~~~eA~~~~~~al~~ 161 (296)
T PRK11189 115 DAAYEAFDSVL-----ELDPTYNYAY---LNRGIALYY-GGRYELAQDDLLAFYQD 161 (296)
T ss_pred HHHHHHHHHHH-----HhCCCCHHHH---HHHHHHHHH-CCCHHHHHHHHHHHHHh
No 71
>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins. Most mitochondrial proteins are encoded by the nuclear genome, and are synthesised in the cytosol. TOM20 is a general import receptor that binds to mitochondrial pre-sequences in the early step of protein import into the mitochondria [].; GO: 0045040 protein import into mitochondrial outer membrane, 0005742 mitochondrial outer membrane translocase complex; PDB: 1ZU2_A.
Probab=26.69 E-value=93 Score=26.34 Aligned_cols=70 Identities=24% Similarity=0.225 Sum_probs=39.0
Q ss_pred hhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCc---hhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccccc
Q 027700 135 RYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHP---IRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHG 209 (220)
Q Consensus 135 RYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~p---irLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~ 209 (220)
==++-+..+.+.+++.+.|..-|++|+.+ .|..+ .-||.|+.-=-|+..-..+.+.=.+.|...|++|..
T Consensus 36 LELAqfk~g~es~~miedAisK~eeAL~I-----~P~~hdAlw~lGnA~ts~A~l~~d~~~A~~~F~kA~~~FqkAv~ 108 (186)
T PF06552_consen 36 LELAQFKQGPESKKMIEDAISKFEEALKI-----NPNKHDALWCLGNAYTSLAFLTPDTAEAEEYFEKATEYFQKAVD 108 (186)
T ss_dssp HHHHHHS-HHHHHHHHHHHHHHHHHHHHH------TT-HHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHhccCcchHHHHHHHHHHHHHHHHhc-----CCchHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHh
Confidence 33566777778888899999999999864 33332 456666554444332222222334456666666653
No 72
>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=26.27 E-value=3.7e+02 Score=22.13 Aligned_cols=57 Identities=12% Similarity=0.184 Sum_probs=45.7
Q ss_pred HHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHH
Q 027700 6 REQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIIS 69 (220)
Q Consensus 6 re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~ 69 (220)
.+--++-+.+.-+.|+|+|++..++.+.+ ...-+.=-+-|++.|....=++ +||..-
T Consensus 44 ~e~~~~~~~l~i~r~~w~dA~rlLr~l~~----~~~~~p~~kALlA~CL~~~~D~---~Wr~~A 100 (160)
T PF09613_consen 44 PELDLFDGWLHIVRGDWDDALRLLRELEE----RAPGFPYAKALLALCLYALGDP---SWRRYA 100 (160)
T ss_pred hHHHHHHHHHHHHhCCHHHHHHHHHHHhc----cCCCChHHHHHHHHHHHHcCCh---HHHHHH
Confidence 34556788888899999999999999876 3666777889999999765544 899874
No 73
>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []. It is also involved in sporulation [].
Probab=26.10 E-value=1.9e+02 Score=25.27 Aligned_cols=56 Identities=18% Similarity=0.169 Sum_probs=45.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHH-HHHHHHHHHHHHhCChHHHHHHHHHhhcc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLG-LALNFSVFYYEILNSSEKACTMAKQVCFI 206 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLg-L~LN~SVF~yEi~~~~~~A~~iAk~Afd~ 206 (220)
.+.|.-.|.+|-.... .++|....+|+ +.+|+++-.+.--++.+.|+..-++|++-
T Consensus 9 ~~~A~~~~~K~~~~~~-~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~ 65 (278)
T PF08631_consen 9 LDLAEHMYSKAKDLLN-SLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDI 65 (278)
T ss_pred HHHHHHHHHHhhhHHh-cCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHH
Confidence 3457778888877665 78889989988 77899999999433999999999999886
No 74
>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]
Probab=25.96 E-value=46 Score=33.41 Aligned_cols=44 Identities=16% Similarity=0.181 Sum_probs=26.7
Q ss_pred HHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHH
Q 027700 124 VFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSV 184 (220)
Q Consensus 124 vfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SV 184 (220)
-|||+|+|. .-.|..||-.|.-.+..+..-+--+-||..||-+=
T Consensus 220 s~YWR~~G~-----------------~~~A~~Ca~~a~hf~~~h~kdi~lLSlaTiL~RaG 263 (886)
T KOG4507|consen 220 SFYWRIKGE-----------------PYQAVECAMRALHFSSRHNKDIALLSLATVLHRAG 263 (886)
T ss_pred HHHHHHcCC-----------------hhhhhHHHHHHhhhCCcccccchhhhHHHHHHHcc
Confidence 477777776 33578888888877654444333344555666543
No 75
>cd02682 MIT_AAA_Arch MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in mostly archaebacterial AAA-ATPases. The molecular function of the MIT domain is unclear.
Probab=25.42 E-value=1.3e+02 Score=21.61 Aligned_cols=27 Identities=19% Similarity=0.212 Sum_probs=21.3
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
.++..|--+++.|||++++.+-+..|+
T Consensus 8 ~~a~~AVe~D~~gr~~eAi~~Y~~aIe 34 (75)
T cd02682 8 KYAINAVKAEKEGNAEDAITNYKKAIE 34 (75)
T ss_pred HHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence 456677778889999999888777765
No 76
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=24.78 E-value=2.4e+02 Score=24.46 Aligned_cols=57 Identities=16% Similarity=0.096 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcccccc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGC 210 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~ 210 (220)
++|.+.|++|.++-+..= ..-......++.+-++.. +|+.++|+++-.+.......+
T Consensus 132 e~Ai~~Y~~A~~~y~~e~--~~~~a~~~~~~~A~l~~~-l~~y~~A~~~~e~~~~~~l~~ 188 (282)
T PF14938_consen 132 EKAIEYYQKAAELYEQEG--SPHSAAECLLKAADLYAR-LGRYEEAIEIYEEVAKKCLEN 188 (282)
T ss_dssp HHHHHHHHHHHHHHHHTT---HHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHTCCCH
T ss_pred HHHHHHHHHHHHHHHHCC--ChhhHHHHHHHHHHHHHH-hCCHHHHHHHHHHHHHHhhcc
No 77
>KOG2002 consensus TPR-containing nuclear phosphoprotein that regulates K(+) uptake [Inorganic ion transport and metabolism]
Probab=24.67 E-value=1.4e+02 Score=31.55 Aligned_cols=50 Identities=18% Similarity=0.179 Sum_probs=38.9
Q ss_pred HHHHHHHHHHhh--cCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcccc
Q 027700 155 LSYKAAQDIALT--DLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPH 208 (220)
Q Consensus 155 ~aY~~A~~~a~~--~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai 208 (220)
++|+.|+.+-.. ...|.||.-|...-|+=+| -++.+.+|.+|-.|+..++
T Consensus 250 ~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyf----K~dy~~v~~la~~ai~~t~ 301 (1018)
T KOG2002|consen 250 DSYKKGVQLLQRAYKENNENPVALNHLANHFYF----KKDYERVWHLAEHAIKNTE 301 (1018)
T ss_pred HHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhh----cccHHHHHHHHHHHHHhhh
Confidence 567777666543 6889999988887777444 6899999999999987763
No 78
>smart00745 MIT Microtubule Interacting and Trafficking molecule domain.
Probab=24.52 E-value=1.4e+02 Score=20.59 Aligned_cols=27 Identities=22% Similarity=0.354 Sum_probs=20.5
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+++..|--.+++|+|++++.+.++.++
T Consensus 10 ~li~~Av~~d~~g~~~eAl~~Y~~a~e 36 (77)
T smart00745 10 ELISKALKADEAGDYEEALELYKKAIE 36 (77)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455666667888999988888888775
No 79
>PF10083 DUF2321: Uncharacterized protein conserved in bacteria (DUF2321); InterPro: IPR016891 This entry is represented by Bacteriophage 'Lactobacillus prophage Lj928', Orf-Ljo1454. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=24.18 E-value=4.1e+02 Score=21.92 Aligned_cols=33 Identities=12% Similarity=0.284 Sum_probs=26.7
Q ss_pred HHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhh
Q 027700 24 EMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIG 59 (220)
Q Consensus 24 Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~ 59 (220)
..++..+++++ . ..+||.+|++.|..+...++-
T Consensus 83 ~~L~aa~el~e-e--~eeLs~deke~~~~sl~dL~~ 115 (158)
T PF10083_consen 83 NALEAANELIE-E--DEELSPDEKEQFKESLPDLTK 115 (158)
T ss_pred HHHHHHHHHHH-H--hhcCCHHHHHHHHhhhHHHhh
Confidence 45677778887 2 379999999999999988774
No 80
>cd02678 MIT_VPS4 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in intracellular protein transport proteins of the AAA-ATPase family. The molecular function of the MIT domain is unclear.
Probab=24.04 E-value=1.4e+02 Score=20.78 Aligned_cols=28 Identities=21% Similarity=0.273 Sum_probs=22.4
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
.+++..|--.+++|+|++++.+..+.++
T Consensus 7 ~~l~~~Av~~D~~g~y~eA~~~Y~~aie 34 (75)
T cd02678 7 IELVKKAIEEDNAGNYEEALRLYQHALE 34 (75)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3556666667889999999999988876
No 81
>PF12083 DUF3560: Domain of unknown function (DUF3560); InterPro: IPR021944 This presumed domain is functionally uncharacterised. This domain is found in bacteria. This domain is about 120 amino acids in length. This domain has a conserved GHHSE sequence motif.
Probab=23.78 E-value=95 Score=24.60 Aligned_cols=28 Identities=32% Similarity=0.450 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHhhcCCCCCchhHH
Q 027700 149 AAENTMLSYKAAQDIALTDLAPTHPIRLG 177 (220)
Q Consensus 149 ~~~~a~~aY~~A~~~a~~~L~pt~pirLg 177 (220)
....|..+|+.+-+++. .+|+.-||-.|
T Consensus 21 a~~~s~~~~~~a~~~~~-~ip~GQPIlVG 48 (126)
T PF12083_consen 21 AAARSEAAYEAANRMAE-AIPFGQPILVG 48 (126)
T ss_pred HHHHHHHHHHHHHHHHh-ccCCCCCeecc
Confidence 46678899999998886 79999999988
No 82
>cd02656 MIT MIT: domain contained within Microtubule Interacting and Trafficking molecules. The MIT domain is found in sorting nexins, the nuclear thiol protease PalBH, the AAA protein spastin and archaebacterial proteins with similar domain architecture, vacuolar sorting proteins and others. The molecular function of the MIT domain is unclear.
Probab=23.74 E-value=2.5e+02 Score=19.27 Aligned_cols=27 Identities=15% Similarity=0.294 Sum_probs=21.4
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+++-.|--+++.|+|++++.+..+.++
T Consensus 8 ~l~~~Av~~D~~g~~~~Al~~Y~~a~e 34 (75)
T cd02656 8 ELIKQAVKEDEDGNYEEALELYKEALD 34 (75)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 455566667888999999999888775
No 83
>TIGR02105 III_needle type III secretion apparatus needle protein. Type III secretion systems translocate proteins, usually virulence factors, out across both inner and outer membranes of certain Gram-negative bacteria and further across the plasma membrane and into the cytoplasm of the host cell. This protein, termed YscF in Yersinia, and EscF, PscF, EprI, etc. in other systems, forms the needle of the injection apparatus.
Probab=23.68 E-value=2.3e+02 Score=20.16 Aligned_cols=36 Identities=14% Similarity=0.248 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCCCchhHH----HHHHHHHHH
Q 027700 148 AAAENTMLSYKAAQDIALTDLAPTHPIRLG----LALNFSVFY 186 (220)
Q Consensus 148 ~~~~~a~~aY~~A~~~a~~~L~pt~pirLg----L~LN~SVF~ 186 (220)
..+..+-+..+.|++-. ..|.||-.|. ..-+||+|+
T Consensus 12 ~~~~~~~~~l~~a~~~l---~~~~nP~~La~~Q~~~~qYs~~~ 51 (72)
T TIGR02105 12 KPADDANQAVNDSLAAL---DLPNDPELMAELQFALNQYSAYY 51 (72)
T ss_pred HHHHHHHHHHHHHHHcc---CCCCCHHHHHHHHHHHHHHHHHH
Confidence 34666777788887633 6678998876 444567664
No 84
>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B.
Probab=23.51 E-value=1.7e+02 Score=19.84 Aligned_cols=24 Identities=21% Similarity=0.243 Sum_probs=18.1
Q ss_pred HHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 11 YLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 11 ~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
....-.=|.|+|+++.+++++++.
T Consensus 28 qvI~gllqlg~~~~a~eYi~~~~~ 51 (62)
T PF14689_consen 28 QVIYGLLQLGKYEEAKEYIKELSK 51 (62)
T ss_dssp HHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHH
Confidence 344445678999999999999985
No 85
>cd07589 BAR_DNMBP The Bin/Amphiphysin/Rvs (BAR) domain of Dynamin Binding Protein. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. DyNamin Binding Protein (DNMBP), also called Tuba, is a Cdc42-specific Guanine nucleotide Exchange Factor (GEF) that binds dynamin and various actin regulatory proteins. It serves as a link between dynamin function, Rho GTPase signaling, and actin dynamics. It plays an important role in regulating cell junction configuration. DNMBP contains BAR and SH3 domains as well as a Dbl Homology domain (DH domain), which harbors GEF activity. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions. The BAR domain of DNMBP may be involved in binding to membranes. The gene encoding DNMBP is a candidate gene for late onset Alzheimer's disease.
Probab=23.44 E-value=4.3e+02 Score=21.93 Aligned_cols=50 Identities=20% Similarity=0.211 Sum_probs=35.4
Q ss_pred hcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHH
Q 027700 130 KGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLA 179 (220)
Q Consensus 130 kgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~ 179 (220)
+-||=||......+..-++-.+.|.+.|+..-+.-.++||+-.-.+.++.
T Consensus 115 llDYdr~~~~~~k~~k~e~~l~~a~~~y~~lN~~L~~ELP~l~~~~~~~l 164 (195)
T cd07589 115 LLDYERYKEKKERGGKVDEELEEAANQYEALNAQLKEELPKFNQLTAQLL 164 (195)
T ss_pred hccHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 57888888877543322333677888898888888889998776666543
No 86
>PF08717 nsp8: nsp8 replicase; InterPro: IPR014829 Viral Nsp8 (non structural protein 8) forms a hexadecameric supercomplex with Nsp7 that adopts a hollow cylinder-like structure []. The dimensions of the central channel and positive electrostatic properties of the cylinder imply that it confers processivity on RNA-dependent RNA polymerase []. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity; PDB: 2AHM_F 3UB0_D.
Probab=22.70 E-value=71 Score=27.17 Aligned_cols=38 Identities=24% Similarity=0.178 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhccc
Q 027700 150 AENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIP 207 (220)
Q Consensus 150 ~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~a 207 (220)
-+.|.++|++|.+- .-+ | ..++...+|+.+||..||.=
T Consensus 15 Ye~A~~~Ye~av~n---g~~---~--------------q~~Kql~KA~NIAKse~drd 52 (199)
T PF08717_consen 15 YETARQAYEEAVAN---GSS---P--------------QELKQLKKAMNIAKSEFDRD 52 (199)
T ss_dssp HHHHHHHHHHHHHC---T-----H--------------HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHc---CCC---H--------------HHHHHHHHHHhHHHHHHhHH
Confidence 46789999998751 111 1 12466778999999998853
No 87
>PF04212 MIT: MIT (microtubule interacting and transport) domain; InterPro: IPR007330 The MIT domain is found in vacuolar sorting proteins, spastin (probable ATPase involved in the assembly or function of nuclear protein complexes), and a sorting nexin, which may play a role in intracellular trafficking.; PDB: 2DL1_A 2JQK_A 1WR0_A 2CPT_A 2JQH_A 2V6Y_A 2JQ9_A 2K3W_A 1YXR_A 3EAB_E ....
Probab=22.55 E-value=1.8e+02 Score=19.66 Aligned_cols=27 Identities=22% Similarity=0.357 Sum_probs=21.7
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
.++..|--+++.|+|++++++-++.++
T Consensus 7 ~~~~~Av~~D~~g~~~~A~~~Y~~ai~ 33 (69)
T PF04212_consen 7 ELIKKAVEADEAGNYEEALELYKEAIE 33 (69)
T ss_dssp HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 567778888889999999888777664
No 88
>PF09324 DUF1981: Domain of unknown function (DUF1981); InterPro: IPR015403 This domain is functionally uncharacterised and found in various plant and yeast protein transport proteins. It is noramlly associated with and C-termianl to the SEC7 domain. The SEC7 domain was named after the first protein found to contain such a region []. It has been shown to be linked with guanine nucleotide exchange function [, ].
Probab=22.04 E-value=3.1e+02 Score=19.72 Aligned_cols=36 Identities=17% Similarity=0.458 Sum_probs=27.7
Q ss_pred CCCHHHHHHHHHHHHhhhh----hhhhHHHHHHhhhhhhh
Q 027700 41 ELTVEERNLLSVAYKNVIG----SLRAAWRIISSIEQKEE 76 (220)
Q Consensus 41 ~Ls~eERnLlsvayKn~i~----~~R~s~R~l~sieqk~~ 76 (220)
.-+.+-|.+.-.+..+++. ..|++|+++-++-....
T Consensus 29 ~~~~~vre~il~ci~qil~~~~~~i~SGW~~if~il~~aa 68 (86)
T PF09324_consen 29 NPSIDVRELILECILQILQSRGENIKSGWKVIFSILRAAA 68 (86)
T ss_pred cCcHHHHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHH
Confidence 3567888888888888887 66999999977665543
No 89
>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO. Members of this protein family include YfiO, a near-essential protein of the outer membrane, part of a complex involved in protein insertion into the bacterial outer membrane. Many proteins in this family are annotated as ComL, based on the involvement of this protein in natural transformation with exogenous DNA in Neisseria gonorrhoeae. This protein family shows sequence similarity to, but is distinct from, the tol-pal system protein YbgF (TIGR02795).
Probab=21.95 E-value=4.4e+02 Score=21.48 Aligned_cols=62 Identities=21% Similarity=0.201 Sum_probs=40.7
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCC--CCHHHHHHHHHHHHhhhhhhhhHHHHHHhhh
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATE--LTVEERNLLSVAYKNVIGSLRAAWRIISSIE 72 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~--Ls~eERnLlsvayKn~i~~~R~s~R~l~sie 72 (220)
+.+..++...-+.|+|++++..+.+++.. +|. ...+-+..+..+|-.. +....+...+....
T Consensus 34 ~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---~p~~~~~~~a~~~la~~~~~~-~~~~~A~~~~~~~l 97 (235)
T TIGR03302 34 EELYEEAKEALDSGDYTEAIKYFEALESR---YPFSPYAEQAQLDLAYAYYKS-GDYAEAIAAADRFI 97 (235)
T ss_pred HHHHHHHHHHHHcCCHHHHHHHHHHHHHh---CCCchhHHHHHHHHHHHHHhc-CCHHHHHHHHHHHH
Confidence 56778888888999999999999999872 232 3334445555555442 45555655655443
No 90
>PHA02103 hypothetical protein
Probab=21.73 E-value=33 Score=26.70 Aligned_cols=15 Identities=47% Similarity=0.727 Sum_probs=11.6
Q ss_pred hcchhhhhhhcccch
Q 027700 130 KGDYYRYLAEFKVGD 144 (220)
Q Consensus 130 kgDyyRYlaE~~~~~ 144 (220)
.-|||||.+|-..+-
T Consensus 78 ipdyyryf~ee~e~i 92 (135)
T PHA02103 78 IPDYYRYFGEEAEGV 92 (135)
T ss_pred ChHHHHHhcccchhh
Confidence 469999999866553
No 91
>cd05493 Bromo_ALL-1 Bromodomain, ALL-1 like proteins. ALL-1 is a vertebrate homologue of Drosophila trithorax and is often affected in chromosomal rearrangements that are linked to acute leukemias, such as acute lymphocytic leukemia (ALL). Bromodomains are found in many chromatin-associated proteins and in nuclear histone acetyltransferases. They interact specifically with acetylated lysine.
Probab=21.73 E-value=1.1e+02 Score=24.56 Aligned_cols=37 Identities=19% Similarity=0.390 Sum_probs=24.5
Q ss_pred HHHHHHHHHHHHHhhhccCCCCCCC-------chHHHHHhhhcc
Q 027700 96 SELSDVCGSILKLLDSHLVPSATAG-------ESKVFYLKMKGD 132 (220)
Q Consensus 96 ~EL~~~C~eil~lId~~Lip~~~~~-------eskvfy~KmkgD 132 (220)
.=+.++|+||+.+|...+......+ -.|-||+|.-=+
T Consensus 75 ~sv~~F~~DvvkIiqa~l~~e~~~pe~~ka~s~~Ksf~ik~me~ 118 (131)
T cd05493 75 TSVLDFSDDIVKIIQAALNSEGGQPEIKKANSMAKSFFIKLMES 118 (131)
T ss_pred ehHHHHHHHHHHHHHHHHhhccCCccccCcchHHHHHHHHHHHH
Confidence 4577899999999988874332222 246788875433
No 92
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=21.22 E-value=2.2e+02 Score=24.94 Aligned_cols=49 Identities=16% Similarity=0.093 Sum_probs=35.7
Q ss_pred HHHHHHHHHHhh--cCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhh
Q 027700 155 LSYKAAQDIALT--DLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVC 204 (220)
Q Consensus 155 ~aY~~A~~~a~~--~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Af 204 (220)
.-|++|....+. ...|.||.+-...++.+..+++ +|++++|+..-++..
T Consensus 194 g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~-~g~~~~A~~~~~~vi 244 (263)
T PRK10803 194 GKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQD-KGDTAKAKAVYQQVI 244 (263)
T ss_pred CCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHH-cCCHHHHHHHHHHHH
Confidence 344555554443 3457899888888888888777 799999999877654
No 93
>KOG4626 consensus O-linked N-acetylglucosamine transferase OGT [Carbohydrate transport and metabolism; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=21.13 E-value=41 Score=33.99 Aligned_cols=46 Identities=26% Similarity=0.411 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhc
Q 027700 151 ENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCF 205 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd 205 (220)
++|..+|+.|+ +++|.|.+--| |.++-||| -|..+-||.--++|++
T Consensus 269 d~Avs~Y~rAl-----~lrpn~A~a~g---Nla~iYye-qG~ldlAI~~Ykral~ 314 (966)
T KOG4626|consen 269 DRAVSCYLRAL-----NLRPNHAVAHG---NLACIYYE-QGLLDLAIDTYKRALE 314 (966)
T ss_pred hHHHHHHHHHH-----hcCCcchhhcc---ceEEEEec-cccHHHHHHHHHHHHh
No 94
>PF00244 14-3-3: 14-3-3 protein; InterPro: IPR023410 The 14-3-3 proteins are a large family of approximately 30kDa acidic proteins which exist primarily as homo- and heterodimeric within all eukaryotic cells [, ]. There is a high degree of sequence identity and conservation between all the 14-3-3 isotypes, particularly in the regions which form the dimer interface or line the central ligand binding channel of the dimeric molecule. Each 14-3-3 protein sequence can be roughly divided into three sections: a divergent amino terminus, the conserved core region and a divergent carboxyl terminus. The conserved middle core region of the 14-3-3s encodes an amphipathic groove that forms the main functional domain, a cradle for interacting with client proteins. The monomer consists of nine helices organised in an antiparallel manner, forming an L-shaped structure. The interior of the L-structure is composed of four helices: H3 and H5, which contain many charged and polar amino acids, and H7 and H9, which contain hydrophobic amino acids. These four helices form the concave amphipathic groove that interacts with target peptides. 14-3-3 proteins mainly bind proteins containing phosphothreonine or phosphoserine motifs however exceptions to this rule do exist. Extensive investigation of the 14-3-3 binding site of the mammalian serine/threonine kinase Raf-1 has produced a consensus sequence for 14-3-3-binding, RSxpSxP (in the single-letter amino-acid code, where x denotes any amino acid and p indicates that the next residue is phosphorylated). 14-3-3 proteins appear to effect intracellular signalling in one of three ways - by direct regulation of the catalytic activity of the bound protein, by regulating interactions between the bound protein and other molecules in the cell by sequestration or modification or by controlling the subcellular localisation of the bound ligand. Proteins appear to initially bind to a single dominant site and then subsequently to many, much weaker secondary interaction sites. The 14-3-3 dimer is capable of changing the conformation of its bound ligand whilst itself undergoing minimal structural alteration. This entry represents the structural domain found in 14-3-3 proteins.; PDB: 2O8P_A 3AXY_D 2C74_A 2C63_A 4DX0_A 1YWT_A 3P1O_A 3P1N_A 4DAU_A 3U9X_A ....
Probab=21.06 E-value=3.2e+02 Score=23.53 Aligned_cols=59 Identities=17% Similarity=0.232 Sum_probs=36.2
Q ss_pred HHHHHHHHHHHHHHHHhhhccCCCCCC-----CchHHHHHhhhcchhhhhhhcccchhHHHHHHHHHHHHHHHHHHH
Q 027700 93 KVESELSDVCGSILKLLDSHLVPSATA-----GESKVFYLKMKGDYYRYLAEFKVGDERKAAAENTMLSYKAAQDIA 164 (220)
Q Consensus 93 ki~~EL~~~C~eil~lId~~Lip~~~~-----~eskvfy~KmkgDyyRYlaE~~~~~~~~~~~~~a~~aY~~A~~~a 164 (220)
...+.-..--++.+++....|-|.... -.-.|||+...|| ..++++-|.++++.|..-.
T Consensus 140 ~~~~~a~~aY~~A~~~a~~~L~~~~p~rLgl~LN~svF~yei~~~-------------~~~A~~ia~~afd~a~~~l 203 (236)
T PF00244_consen 140 EAAEKALEAYEEALEIAKKELPPTHPLRLGLALNYSVFYYEILND-------------PEKAIEIAKQAFDEAISEL 203 (236)
T ss_dssp HHHHHHHHHHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTSS--------------HHHHHHHHHHHHHHHHHGG
T ss_pred HHHHHHHHhhhhHHHHHhcccCCCCcHHHHHHHHHHHHHHHHcCC-------------hHHHHHHHHHHHHHHHhhh
Confidence 344444555566777878776444321 1445888877666 3456777888888887644
No 95
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=20.89 E-value=3.7e+02 Score=21.99 Aligned_cols=53 Identities=9% Similarity=0.033 Sum_probs=34.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhcCCCCCchhHHHHHHHHHHHHHHhCChHHHHHHHHHhhcccccc
Q 027700 145 ERKAAAENTMLSYKAAQDIALTDLAPTHPIRLGLALNFSVFYYEILNSSEKACTMAKQVCFIPHGC 210 (220)
Q Consensus 145 ~~~~~~~~a~~aY~~A~~~a~~~L~pt~pirLgL~LN~SVF~yEi~~~~~~A~~iAk~Afd~ai~~ 210 (220)
....--++|.++|..|.. |.|.||- ...|.++-+.- +|+++.|. +||+.||.+
T Consensus 80 Q~~g~~~~AI~aY~~A~~-----L~~ddp~---~~~~ag~c~L~-lG~~~~A~----~aF~~Ai~~ 132 (157)
T PRK15363 80 QAQKHWGEAIYAYGRAAQ-----IKIDAPQ---APWAAAECYLA-CDNVCYAI----KALKAVVRI 132 (157)
T ss_pred HHHhhHHHHHHHHHHHHh-----cCCCCch---HHHHHHHHHHH-cCCHHHHH----HHHHHHHHH
Confidence 344446778899988874 5566663 25666666666 78877765 566666544
No 96
>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A.
Probab=20.75 E-value=3.3e+02 Score=22.35 Aligned_cols=65 Identities=25% Similarity=0.304 Sum_probs=39.7
Q ss_pred cHHhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHHhh
Q 027700 5 TREQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIISSI 71 (220)
Q Consensus 5 ~re~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~si 71 (220)
+-+.+-..|.-+-+.|+|++++..++.++.. .++.++..+-.-.+..||=+ .+..-.|...+...
T Consensus 4 ~~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~-~P~s~~a~~A~l~la~a~y~-~~~y~~A~~~~~~f 68 (203)
T PF13525_consen 4 TAEALYQKALEALQQGDYEEAIKLFEKLIDR-YPNSPYAPQAQLMLAYAYYK-QGDYEEAIAAYERF 68 (203)
T ss_dssp -HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH--TTSTTHHHHHHHHHHHHHH-TT-HHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-CCCChHHHHHHHHHHHHHHH-cCCHHHHHHHHHHH
Confidence 3456777888888899999999999999973 33456666655555544422 24444555555443
No 97
>PF00901 Orbi_VP5: Orbivirus outer capsid protein VP5; InterPro: IPR000145 The orbivirus VP5 protein is one of the two proteins (with VP2) which make up the virus particle outer capsid. Cryoelectron microscopy indicates that VP5 is a trimer suggesting that there are 360 copies of VP5 per virion [].; GO: 0005198 structural molecule activity, 0019028 viral capsid
Probab=20.73 E-value=3.9e+02 Score=26.07 Aligned_cols=71 Identities=20% Similarity=0.361 Sum_probs=49.0
Q ss_pred CHHHHHHHHHHHhhccCCCCCCCHHHHHHHHH---HHHhhhhhhhhHHHHHHhhhhhhhcccchhhhHHHHHHHHHHH
Q 027700 21 RYEEMVKFMDSLVTSSTPATELTVEERNLLSV---AYKNVIGSLRAAWRIISSIEQKEEGRKNEEHVSLVKDYRSKVE 95 (220)
Q Consensus 21 Ry~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsv---ayKn~i~~~R~s~R~l~sieqk~~~~~~~~~~~~i~~yk~ki~ 95 (220)
..++.-++|+.... ..+.-.+|..+|.. +|..++..-+..+..|..--|+|....+....+++++||.++.
T Consensus 120 ~L~~v~~~~~~~~~----~~~~e~~q~~~LekAl~~~~~i~~~E~~~l~~L~~AL~kE~~~Rt~dE~~mv~~yr~ki~ 193 (508)
T PF00901_consen 120 DLEKVYKFMKGQEK----VEEEEENQIEILEKALKSYGKIVKEENKQLDRLARALQKESRERTQDERKMVEEYRQKID 193 (508)
T ss_pred HHHHHHHHHHHhHh----hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHH
Confidence 35555666665543 24555667777765 4667778888888888877788766556667788888888764
No 98
>TIGR02284 conserved hypothetical protein. Members of this protein family are found mostly in the Proteobacteria, although one member is found in the the marine planctomycete Pirellula sp. strain 1. The function is unknown.
Probab=20.71 E-value=2e+02 Score=22.70 Aligned_cols=20 Identities=10% Similarity=0.139 Sum_probs=13.6
Q ss_pred HHHHHHHHHHHHHHhhcCCCCC
Q 027700 151 ENTMLSYKAAQDIALTDLAPTH 172 (220)
Q Consensus 151 ~~a~~aY~~A~~~a~~~L~pt~ 172 (220)
+.+.++|++|++- ..|||.-
T Consensus 98 d~~~~~y~~aL~~--~~l~~~~ 117 (139)
T TIGR02284 98 DRAKKAYDETLAD--QDTPAAA 117 (139)
T ss_pred HHHHHHHHHHHhc--CCCChHH
Confidence 4578889999863 2477653
No 99
>cd02681 MIT_calpain7_1 MIT: domain contained within Microtubule Interacting and Trafficking molecules. This sub-family of MIT domains is found in the nuclear thiol protease PalBH. The molecular function of the MIT domain is unclear.
Probab=20.44 E-value=1.9e+02 Score=20.73 Aligned_cols=27 Identities=30% Similarity=0.413 Sum_probs=20.0
Q ss_pred hHHHHHHHHHHhCCHHHHHHHHHHHhh
Q 027700 8 QYVYLAKLAEQAERYEEMVKFMDSLVT 34 (220)
Q Consensus 8 ~li~~Aklaeq~eRy~Dm~~~mk~~i~ 34 (220)
+++-.|=-++++|+|++++.+=+..++
T Consensus 8 ~~a~~Ave~D~~g~y~eA~~~Y~~aie 34 (76)
T cd02681 8 QFARLAVQRDQEGRYSEAVFYYKEAAQ 34 (76)
T ss_pred HHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence 445556666888999999888777665
No 100
>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK. This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.
Probab=20.10 E-value=3.8e+02 Score=21.98 Aligned_cols=56 Identities=14% Similarity=0.273 Sum_probs=44.6
Q ss_pred HhHHHHHHHHHHhCCHHHHHHHHHHHhhccCCCCCCCHHHHHHHHHHHHhhhhhhhhHHHHHH
Q 027700 7 EQYVYLAKLAEQAERYEEMVKFMDSLVTSSTPATELTVEERNLLSVAYKNVIGSLRAAWRIIS 69 (220)
Q Consensus 7 e~li~~Aklaeq~eRy~Dm~~~mk~~i~~~~~~~~Ls~eERnLlsvayKn~i~~~R~s~R~l~ 69 (220)
+--++-+-+.-+.|+|+|++..+..+.+ ++.-+.=-+-|++.|.+-.=++ +||..-
T Consensus 45 e~d~~dg~l~i~rg~w~eA~rvlr~l~~----~~~~~p~~kAL~A~CL~al~Dp---~Wr~~A 100 (153)
T TIGR02561 45 ELDMFDGWLLIARGNYDEAARILRELLS----SAGAPPYGKALLALCLNAKGDA---EWHVHA 100 (153)
T ss_pred ccchhHHHHHHHcCCHHHHHHHHHhhhc----cCCCchHHHHHHHHHHHhcCCh---HHHHHH
Confidence 3446777888899999999999999986 3556677788999998876554 899874
Done!