Query 035556
Match_columns 261
No_of_seqs 128 out of 146
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 04:01:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035556.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035556hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12937 F-box-like: F-box-lik 98.1 1.2E-06 2.6E-11 59.5 2.1 46 37-85 1-46 (47)
2 KOG1550 Extracellular protein 97.8 0.00011 2.3E-09 73.8 9.9 90 95-184 308-400 (552)
3 smart00256 FBOX A Receptor for 97.8 3.6E-05 7.7E-10 49.6 3.9 40 40-82 1-40 (41)
4 COG0790 FOG: TPR repeat, SEL1 97.6 0.00027 5.9E-09 63.8 8.5 86 94-179 127-222 (292)
5 PF00646 F-box: F-box domain; 97.4 5.5E-05 1.2E-09 51.0 1.3 43 37-82 3-45 (48)
6 COG0790 FOG: TPR repeat, SEL1 97.4 0.0006 1.3E-08 61.6 8.4 83 94-176 91-183 (292)
7 KOG1550 Extracellular protein 96.7 0.0046 9.9E-08 62.2 7.9 112 64-175 229-355 (552)
8 KOG2997 F-box protein FBX9 [Ge 96.3 0.0034 7.4E-08 59.7 3.5 52 36-87 106-159 (366)
9 KOG2120 SCF ubiquitin ligase, 93.8 0.058 1.2E-06 51.7 3.4 46 37-85 98-143 (419)
10 smart00671 SEL1 Sel1-like repe 93.7 0.14 3E-06 31.6 4.1 31 113-143 2-35 (36)
11 KOG4014 Uncharacterized conser 92.2 1.5 3.2E-05 39.7 9.7 97 74-170 102-226 (248)
12 PF13414 TPR_11: TPR repeat; P 92.0 0.55 1.2E-05 32.9 5.7 62 111-175 2-65 (69)
13 PF08238 Sel1: Sel1 repeat; I 92.0 0.33 7.2E-06 30.5 4.1 29 146-174 2-34 (39)
14 smart00671 SEL1 Sel1-like repe 91.7 0.28 6.1E-06 30.2 3.5 31 145-175 1-32 (36)
15 PF08238 Sel1: Sel1 repeat; I 91.7 0.3 6.6E-06 30.7 3.6 28 112-139 1-34 (39)
16 PRK10370 formate-dependent nit 87.4 4.7 0.0001 35.1 9.0 79 95-176 88-172 (198)
17 PF12688 TPR_5: Tetratrico pep 87.2 7 0.00015 31.9 9.4 90 96-189 17-115 (120)
18 TIGR02795 tol_pal_ybgF tol-pal 85.9 8 0.00017 28.9 8.6 75 97-175 19-103 (119)
19 KOG4014 Uncharacterized conser 85.6 2 4.4E-05 38.7 5.8 82 102-183 58-147 (248)
20 PRK15359 type III secretion sy 85.0 6.5 0.00014 32.3 8.2 77 96-176 40-120 (144)
21 PLN03088 SGT1, suppressor of 81.5 12 0.00026 35.5 9.6 90 96-189 18-119 (356)
22 PRK11906 transcriptional regul 81.2 6.7 0.00015 39.3 7.9 84 100-192 324-411 (458)
23 PF13432 TPR_16: Tetratricopep 80.5 4.1 8.9E-05 28.1 4.6 50 123-175 7-58 (65)
24 TIGR02552 LcrH_SycD type III s 79.2 23 0.0005 27.5 9.1 77 96-176 33-113 (135)
25 PRK12370 invasion protein regu 78.4 11 0.00023 37.9 8.5 76 97-176 321-400 (553)
26 PLN03215 ascorbic acid mannose 76.4 2.4 5.1E-05 41.3 3.1 37 38-76 5-41 (373)
27 PF14559 TPR_19: Tetratricopep 76.0 14 0.0003 25.5 6.3 51 125-178 3-55 (68)
28 PF12895 Apc3: Anaphase-promot 75.4 8.4 0.00018 28.2 5.3 75 97-174 6-84 (84)
29 PRK15359 type III secretion sy 75.1 23 0.0005 29.0 8.4 76 96-176 9-86 (144)
30 PLN03098 LPA1 LOW PSII ACCUMUL 72.7 13 0.00028 37.3 7.2 66 107-176 70-140 (453)
31 TIGR02795 tol_pal_ybgF tol-pal 72.3 20 0.00043 26.7 6.8 60 112-175 2-66 (119)
32 PRK11189 lipoprotein NlpI; Pro 70.0 17 0.00038 33.3 7.1 74 98-175 82-159 (296)
33 PF13013 F-box-like_2: F-box-l 62.7 9.5 0.00021 31.0 3.4 41 33-76 18-58 (109)
34 TIGR02552 LcrH_SycD type III s 62.6 28 0.0006 27.0 6.1 61 111-175 16-78 (135)
35 PRK10803 tol-pal system protei 62.1 41 0.00089 30.9 7.9 72 112-187 180-260 (263)
36 PRK09782 bacteriophage N4 rece 58.7 47 0.001 36.4 8.7 76 96-175 625-704 (987)
37 cd00189 TPR Tetratricopeptide 58.5 48 0.001 21.8 6.0 75 97-175 17-95 (100)
38 TIGR02521 type_IV_pilW type IV 57.8 86 0.0019 25.3 8.5 77 96-176 81-163 (234)
39 TIGR02917 PEP_TPR_lipo putativ 57.6 59 0.0013 32.4 8.7 79 95-176 785-865 (899)
40 PRK02603 photosystem I assembl 57.3 41 0.00089 27.9 6.5 14 127-140 49-62 (172)
41 PRK15174 Vi polysaccharide exp 57.2 35 0.00075 35.2 7.2 100 69-175 68-171 (656)
42 TIGR02521 type_IV_pilW type IV 56.8 88 0.0019 25.2 8.3 77 96-176 115-197 (234)
43 TIGR02917 PEP_TPR_lipo putativ 55.3 67 0.0015 32.0 8.7 76 96-176 752-831 (899)
44 PRK12370 invasion protein regu 54.6 68 0.0015 32.2 8.7 45 96-141 354-400 (553)
45 TIGR00990 3a0801s09 mitochondr 53.5 61 0.0013 32.7 8.2 74 98-175 383-460 (615)
46 PF13432 TPR_16: Tetratricopep 50.1 31 0.00068 23.5 4.0 46 96-142 13-60 (65)
47 PRK10370 formate-dependent nit 50.0 70 0.0015 27.8 7.0 78 97-175 56-137 (198)
48 PF14852 Fis1_TPR_N: Fis1 N-te 49.8 31 0.00067 22.4 3.6 30 146-176 2-32 (35)
49 cd00189 TPR Tetratricopeptide 49.5 72 0.0016 20.9 7.1 58 114-175 2-61 (100)
50 PF13424 TPR_12: Tetratricopep 49.4 46 0.001 23.5 4.9 48 125-175 17-73 (78)
51 PF00515 TPR_1: Tetratricopept 48.3 32 0.00068 20.6 3.4 28 145-175 1-28 (34)
52 PF07719 TPR_2: Tetratricopept 48.3 32 0.00069 20.2 3.4 28 145-175 1-28 (34)
53 KOG0281 Beta-TrCP (transducin 48.1 17 0.00037 35.7 3.0 54 34-90 72-129 (499)
54 PRK10564 maltose regulon perip 47.5 30 0.00066 33.0 4.6 40 110-149 254-293 (303)
55 PRK11189 lipoprotein NlpI; Pro 47.2 68 0.0015 29.4 6.8 62 110-175 62-125 (296)
56 PF13371 TPR_9: Tetratricopept 46.9 76 0.0016 21.9 5.7 51 123-176 5-57 (73)
57 CHL00033 ycf3 photosystem I as 46.7 77 0.0017 26.0 6.5 60 96-156 51-117 (168)
58 PF13174 TPR_6: Tetratricopept 46.7 27 0.00058 20.4 2.8 28 146-176 1-28 (33)
59 PRK11788 tetratricopeptide rep 46.5 1.5E+02 0.0032 27.2 9.0 48 125-175 119-168 (389)
60 PRK10153 DNA-binding transcrip 46.3 84 0.0018 31.8 7.8 66 109-178 417-483 (517)
61 PRK10803 tol-pal system protei 45.4 93 0.002 28.6 7.4 65 108-175 138-207 (263)
62 KOG1126 DNA-binding cell divis 44.1 80 0.0017 33.1 7.3 75 98-175 507-584 (638)
63 TIGR03302 OM_YfiO outer membra 43.4 1E+02 0.0022 26.4 7.0 15 126-140 46-60 (235)
64 PRK15179 Vi polysaccharide bio 42.1 1.6E+02 0.0035 31.0 9.3 75 97-175 137-215 (694)
65 CHL00033 ycf3 photosystem I as 42.0 1.3E+02 0.0027 24.7 7.1 57 116-176 39-100 (168)
66 PF13429 TPR_15: Tetratricopep 41.8 1.2E+02 0.0027 26.8 7.5 77 96-176 162-242 (280)
67 PRK11447 cellulose synthase su 41.2 1.1E+02 0.0023 33.8 8.2 76 96-175 477-556 (1157)
68 PRK15363 pathogenicity island 38.7 2.6E+02 0.0056 24.1 8.8 78 96-176 51-131 (157)
69 PF09976 TPR_21: Tetratricopep 38.7 2.1E+02 0.0044 23.0 10.3 75 96-174 64-144 (145)
70 PF06552 TOM20_plant: Plant sp 37.5 98 0.0021 27.6 5.9 77 110-187 23-120 (186)
71 PRK15174 Vi polysaccharide exp 36.7 1.8E+02 0.0038 30.1 8.6 76 96-176 126-205 (656)
72 PRK10049 pgaA outer membrane p 35.7 1.8E+02 0.004 30.4 8.6 76 96-176 65-144 (765)
73 PF13181 TPR_8: Tetratricopept 34.7 77 0.0017 18.7 3.6 27 146-175 2-28 (34)
74 PRK11788 tetratricopeptide rep 34.3 2.3E+02 0.005 25.9 8.3 44 97-141 197-242 (389)
75 PF13428 TPR_14: Tetratricopep 33.4 95 0.0021 20.0 4.1 29 124-152 12-42 (44)
76 PF01851 PC_rep: Proteasome/cy 33.2 63 0.0014 20.6 3.1 25 147-175 2-26 (35)
77 PRK10747 putative protoheme IX 32.8 1.8E+02 0.0039 27.8 7.5 78 95-176 133-215 (398)
78 PRK10049 pgaA outer membrane p 32.7 2.3E+02 0.005 29.7 8.8 77 95-176 98-178 (765)
79 COG4235 Cytochrome c biogenesi 32.4 1.9E+02 0.004 27.5 7.2 66 110-178 188-257 (287)
80 PF03540 TFIID_30kDa: Transcri 32.3 83 0.0018 22.3 3.7 19 38-56 1-19 (51)
81 PRK15179 Vi polysaccharide bio 32.0 1.4E+02 0.0031 31.4 7.1 77 96-175 102-181 (694)
82 PF07721 TPR_4: Tetratricopept 31.9 71 0.0015 18.6 3.0 25 145-172 1-25 (26)
83 PF14561 TPR_20: Tetratricopep 31.6 2.4E+02 0.0051 21.6 6.7 65 110-187 20-85 (90)
84 PLN03088 SGT1, suppressor of 31.4 1.3E+02 0.0028 28.6 6.2 51 122-175 11-63 (356)
85 TIGR00990 3a0801s09 mitochondr 30.5 2.8E+02 0.0061 27.9 8.8 76 96-175 347-426 (615)
86 PRK14574 hmsH outer membrane p 30.0 2.2E+02 0.0048 30.7 8.2 77 97-175 119-196 (822)
87 PRK09782 bacteriophage N4 rece 29.7 2.7E+02 0.0058 30.7 8.9 76 96-175 592-670 (987)
88 PRK02603 photosystem I assembl 28.4 3.4E+02 0.0073 22.3 8.0 60 96-156 51-117 (172)
89 PF13176 TPR_7: Tetratricopept 28.3 1E+02 0.0023 19.0 3.5 26 147-175 1-26 (36)
90 PF11286 DUF3087: Protein of u 28.1 74 0.0016 27.8 3.5 39 98-136 94-137 (165)
91 PF12688 TPR_5: Tetratrico pep 28.0 2E+02 0.0042 23.4 5.9 64 112-177 1-67 (120)
92 PHA02751 hypothetical protein; 27.3 23 0.0005 31.6 0.3 84 60-156 126-210 (233)
93 PF04842 DUF639: Plant protein 27.1 1.1E+02 0.0024 32.3 5.2 80 104-201 590-672 (683)
94 KOG3926 F-box proteins [Amino 26.2 83 0.0018 30.0 3.7 53 34-88 199-251 (332)
95 PRK00418 DNA gyrase inhibitor; 25.7 37 0.00081 25.0 1.1 25 211-241 10-36 (62)
96 cd05804 StaR_like StaR_like; a 24.5 3.1E+02 0.0066 24.8 7.2 15 127-141 162-176 (355)
97 COG3483 TDO2 Tryptophan 2,3-di 23.8 1.9E+02 0.004 26.8 5.4 94 57-161 62-161 (262)
98 PRK10747 putative protoheme IX 23.6 2.7E+02 0.0058 26.6 6.8 77 97-177 101-182 (398)
99 PRK14574 hmsH outer membrane p 23.4 3E+02 0.0065 29.7 7.7 82 92-176 80-164 (822)
100 PF13429 TPR_15: Tetratricopep 23.1 1.8E+02 0.004 25.7 5.3 50 123-175 120-173 (280)
101 TIGR00540 hemY_coli hemY prote 22.9 4.2E+02 0.0091 25.3 8.1 80 94-176 132-215 (409)
102 PF07064 RIC1: RIC1; InterPro 22.9 6E+02 0.013 23.4 10.1 58 97-154 180-245 (258)
103 PF13431 TPR_17: Tetratricopep 22.0 99 0.0021 19.2 2.4 16 141-156 9-24 (34)
104 cd08788 CARD_NOD2_2_CARD15 Cas 21.8 1.3E+02 0.0029 23.3 3.5 56 99-155 16-71 (81)
105 PF13374 TPR_10: Tetratricopep 21.8 1.5E+02 0.0033 17.8 3.3 27 146-175 3-29 (42)
106 PF05944 Phage_term_smal: Phag 21.7 2.1E+02 0.0046 23.9 5.0 49 96-144 29-79 (132)
107 PRK11447 cellulose synthase su 21.3 4.3E+02 0.0094 29.2 8.6 76 96-175 619-698 (1157)
108 PRK10866 outer membrane biogen 20.8 4.2E+02 0.0091 23.8 7.2 63 110-176 30-97 (243)
109 cd05804 StaR_like StaR_like; a 20.4 4.6E+02 0.01 23.6 7.5 67 107-176 106-176 (355)
110 PRK14700 recombination factor 20.2 3E+02 0.0065 26.3 6.3 64 93-156 139-209 (300)
111 smart00028 TPR Tetratricopepti 20.1 1.5E+02 0.0032 15.3 3.0 27 146-175 2-28 (34)
No 1
>PF12937 F-box-like: F-box-like; PDB: 1P22_A 2OVP_B 2OVR_B 2OVQ_B 1FS1_A 1FS2_C 1FQV_I 1LDK_E 2AST_B 2ASS_B.
Probab=98.14 E-value=1.2e-06 Score=59.52 Aligned_cols=46 Identities=33% Similarity=0.578 Sum_probs=39.5
Q ss_pred CCCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHhcCc
Q 035556 37 IESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEHASL 85 (261)
Q Consensus 37 ~~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl 85 (261)
++.||+|++.+|+..+. +.|+.++.+|||+|++++.++.+++++.+
T Consensus 1 i~~LP~Eil~~If~~L~---~~dl~~~~~vcr~w~~~~~~~~lW~~~~~ 46 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYLD---PRDLLRLSLVCRRWRRIANDNSLWRRLCL 46 (47)
T ss_dssp CCCS-HHHHHHHHTTS----HHHHHHHTTSSHHHHHHHTCCCHHHHHC-
T ss_pred ChHhHHHHHHHHHhcCC---HHHHHHHHHHHHHHHHHHCChhhhhhhcc
Confidence 46899999999998885 88999999999999999999999887654
No 2
>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=97.80 E-value=0.00011 Score=73.82 Aligned_cols=90 Identities=18% Similarity=0.128 Sum_probs=77.7
Q ss_pred CCcchHHHHHHHHhcCCchHHHHHHHHHHhcc--CCcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCcc-hHHHHHHHH
Q 035556 95 TDRHASLFLMRCKKSGNPEALYRQGMHDYFSL--GLTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGSQ-FKKQGFELL 171 (261)
Q Consensus 95 ~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~--~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~e-~~~~a~~~f 171 (261)
+...+...+.++++.|||+|+|.+|...+... +|...|.+++..||..||..|.|.+|+++..|.|.+ +..+++.|+
T Consensus 308 d~~~A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~ 387 (552)
T KOG1550|consen 308 DYEKALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYY 387 (552)
T ss_pred cHHHHHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHH
Confidence 45678999999999999999999999999888 677899999999999999999999999999887764 589999999
Q ss_pred HHhhcccchHHHH
Q 035556 172 SSLKSTYGIRECR 184 (261)
Q Consensus 172 ~~~~~t~~~~ecr 184 (261)
.++-..-....++
T Consensus 388 k~aA~~g~~~A~~ 400 (552)
T KOG1550|consen 388 KKAAEKGNPSAAY 400 (552)
T ss_pred HHHHHccChhhHH
Confidence 9886444333344
No 3
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=97.76 E-value=3.6e-05 Score=49.63 Aligned_cols=40 Identities=23% Similarity=0.384 Sum_probs=37.2
Q ss_pred CChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHh
Q 035556 40 LPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEH 82 (261)
Q Consensus 40 LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~ 82 (261)
||+|++..|+..+. +.|+.++.++||+|+.++.++.+.+.
T Consensus 1 lP~~ll~~I~~~l~---~~d~~~~~~vc~~~~~~~~~~~~~~~ 40 (41)
T smart00256 1 LPDEILEEILSKLP---PKDLLRLRKVSRRWRSLIDSHDFWFK 40 (41)
T ss_pred CCHHHHHHHHHcCC---HHHHHHHHHHHHHHHHHhcChhhhhc
Confidence 79999999999997 79999999999999999999988764
No 4
>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]
Probab=97.60 E-value=0.00027 Score=63.76 Aligned_cols=86 Identities=21% Similarity=0.248 Sum_probs=67.3
Q ss_pred CCCcchHHHHHHHHhcCCchH---HHHHHHHHHhc---cC---CcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCc-ch
Q 035556 94 MTDRHASLFLMRCKKSGNPEA---LYRQGMHDYFS---LG---LTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGS-QF 163 (261)
Q Consensus 94 ~~~~ka~~FL~rCleaGNpeA---~Y~~Gm~~~~~---~~---~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~-e~ 163 (261)
++...+..|+.++++.||++| +|..|.+.... .+ +...++.++.+|+..|++.|.+.+|.++.+|.|. .+
T Consensus 127 ~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~~~~a~~~lg~~y~~G~Gv~~d 206 (292)
T COG0790 127 LDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELGNPDAQLLLGRMYEKGLGVPRD 206 (292)
T ss_pred cCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhcCHHHHHHHHHHHHcCCCCCcC
Confidence 456778888899999999988 88888877765 22 2246888889999999999999999888888775 46
Q ss_pred HHHHHHHHHHhhcccc
Q 035556 164 KKQGFELLSSLKSTYG 179 (261)
Q Consensus 164 ~~~a~~~f~~~~~t~~ 179 (261)
.++|+.||.++-....
T Consensus 207 ~~~A~~wy~~Aa~~g~ 222 (292)
T COG0790 207 LKKAFRWYKKAAEQGD 222 (292)
T ss_pred HHHHHHHHHHHHHCCC
Confidence 8888888888875443
No 5
>PF00646 F-box: F-box domain; InterPro: IPR001810 The F-box domain was first described as a sequence motif found in cyclin-F that interacts with the protein SKP1 [, ]. This relatively conserved structural motif is present in numerous proteins and serves as a link between a target protein and a ubiquitin-conjugating enzyme. The SCF complex (e.g., Skp1-Cullin-F-box) plays a similar role as an E3 ligase in the ubiquitin protein degradation pathway [, ]. Different F-box proteins as a part of SCF complex recruit particular substrates for ubiquitination through specific protein-protein interaction domains. Many mammalian F-box domains contain leucine-rich or WD-40 repeats (IPR001680 from INTERPRO). However, several F-box proteins either have other previously described domains such as Sec7 domain found in FBS protein or do not contain defined protein-protein interaction domains or motifs.; GO: 0005515 protein binding; PDB: 2E32_A 2E31_A 3V7D_B 1NEX_B 3MKS_D 3L2O_B.
Probab=97.44 E-value=5.5e-05 Score=50.99 Aligned_cols=43 Identities=26% Similarity=0.447 Sum_probs=36.5
Q ss_pred CCCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHh
Q 035556 37 IESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEH 82 (261)
Q Consensus 37 ~~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~ 82 (261)
+..||+|++.+|+.++. +.|+.++.++||+|++++.++.....
T Consensus 3 ~~~LP~~il~~Il~~l~---~~~~~~l~~vsk~~~~~~~~~~~~~~ 45 (48)
T PF00646_consen 3 LSDLPDEILQEILSYLD---PKDLLRLSLVSKRWRSLVDSPRLWKK 45 (48)
T ss_dssp HHHS-HHHHHHHHHTS----HHHHHHHCTT-HHHHHHHTTHHHHHH
T ss_pred HHHCCHHHHHHHHHHCc---HHHHHHHHHHhhHHHHHHcCCCccHH
Confidence 56799999999999999 99999999999999999999887653
No 6
>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]
Probab=97.44 E-value=0.0006 Score=61.57 Aligned_cols=83 Identities=17% Similarity=0.100 Sum_probs=71.0
Q ss_pred CCCcchHHHHHHHHhcCCchHHHHHHHHHHhcc---CCcHHHHHHHHHHhhcCCchh---HHHHHHHHHhc---cCc-ch
Q 035556 94 MTDRHASLFLMRCKKSGNPEALYRQGMHDYFSL---GLTNSGFRLLKRAADKKHPEA---TYVYTIIMLLC---CGS-QF 163 (261)
Q Consensus 94 ~~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~---~~~~~Gl~lL~~AA~~G~~~A---~Y~lgmL~l~~---~G~-e~ 163 (261)
++...+..|+...++.|+|+++|.+|++..... +|..+|+.++.+||..||..| .|.+|.++.++ .+. ..
T Consensus 91 ~~~~~A~~~~~~~a~~g~~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~ 170 (292)
T COG0790 91 RDKTKAADWYRCAAADGLAEALFNLGLMYANGRGVPLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYD 170 (292)
T ss_pred ccHHHHHHHHHHHhhcccHHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHH
Confidence 345668889999999999999999999999754 477999999999999999999 99999999987 555 34
Q ss_pred HHHHHHHHHHhhc
Q 035556 164 KKQGFELLSSLKS 176 (261)
Q Consensus 164 ~~~a~~~f~~~~~ 176 (261)
.++++.+|.++-.
T Consensus 171 ~~~A~~~~~~aa~ 183 (292)
T COG0790 171 DKKALYLYRKAAE 183 (292)
T ss_pred HHhHHHHHHHHHH
Confidence 6789999988753
No 7
>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=96.74 E-value=0.0046 Score=62.24 Aligned_cols=112 Identities=20% Similarity=0.209 Sum_probs=88.5
Q ss_pred HHhcHHHHHhhcCHHHHHhcCccccccc----cCCCCcchHHHHHHHHh-------cCCchHHHHHHHHHHhc---cC-C
Q 035556 64 KLSCKYFLQAADDDFVFEHASLDKFYVV----WPMTDRHASLFLMRCKK-------SGNPEALYRQGMHDYFS---LG-L 128 (261)
Q Consensus 64 ~ltcK~f~~l~~~~~Vl~~~sl~~~~l~----w~~~~~ka~~FL~rCle-------aGNpeA~Y~~Gm~~~~~---~~-~ 128 (261)
...-+.|+.++....+.....+.-+-+. -.++..++..||.+.+. .|+|.|.|-+|...+-+ .. |
T Consensus 229 ~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~~~~~d 308 (552)
T KOG1550|consen 229 SEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGLGRLYLQGLGVEKID 308 (552)
T ss_pred hHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHHHHHHhcCCCCcccc
Confidence 3455677777777777766555443211 24678889999999988 99999999999988843 33 6
Q ss_pred cHHHHHHHHHHhhcCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 129 TNSGFRLLKRAADKKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 129 ~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
...|+.++.+||..|++.|+|.+|.++..|.-.++..+|++||..+-
T Consensus 309 ~~~A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa 355 (552)
T KOG1550|consen 309 YEKALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAA 355 (552)
T ss_pred HHHHHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHH
Confidence 68999999999999999999999999997772245889999999986
No 8
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=96.30 E-value=0.0034 Score=59.70 Aligned_cols=52 Identities=33% Similarity=0.501 Sum_probs=47.1
Q ss_pred CCCCCChHHHHHHHHHhccc--ChhhhHHHHHhcHHHHHhhcCHHHHHhcCccc
Q 035556 36 SIESLPHALLTEVMAQVAST--SLVDLSRLKLSCKYFLQAADDDFVFEHASLDK 87 (261)
Q Consensus 36 ~~~~LPdDLlv~I~arVa~~--S~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl~~ 87 (261)
.|..||||+|..|+++|-++ +..+|.++.+|||-|.-.+.+|++.+.+.++.
T Consensus 106 ~~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~aC~Kv 159 (366)
T KOG2997|consen 106 SISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRLACLKV 159 (366)
T ss_pred hhhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHHHHHHH
Confidence 46789999999999999864 78999999999999999999999999988744
No 9
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=93.79 E-value=0.058 Score=51.72 Aligned_cols=46 Identities=24% Similarity=0.460 Sum_probs=40.4
Q ss_pred CCCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHhcCc
Q 035556 37 IESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEHASL 85 (261)
Q Consensus 37 ~~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl 85 (261)
+++|||+++..|++-+- --||..+..+||||..++.|....+..++
T Consensus 98 ~~slpDEill~IFs~L~---kk~LL~~~~VC~Rfyr~~~de~lW~~lDl 143 (419)
T KOG2120|consen 98 WDSLPDEILLGIFSCLC---KKELLKVSGVCKRFYRLASDESLWQTLDL 143 (419)
T ss_pred cccCCHHHHHHHHHhcc---HHHHHHHHHHHHHHhhccccccceeeecc
Confidence 78999999999999998 88999999999999999987766665444
No 10
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=93.71 E-value=0.14 Score=31.64 Aligned_cols=31 Identities=23% Similarity=0.225 Sum_probs=15.8
Q ss_pred hHHHHHHHHHHhc---cCCcHHHHHHHHHHhhcC
Q 035556 113 EALYRQGMHDYFS---LGLTNSGFRLLKRAADKK 143 (261)
Q Consensus 113 eA~Y~~Gm~~~~~---~~~~~~Gl~lL~~AA~~G 143 (261)
+|+|.+|.+.+.. +.|...|+.++.+||..|
T Consensus 2 ~a~~~lg~~~~~G~g~~~d~~~A~~~~~~Aa~~g 35 (36)
T smart00671 2 EAQYNLGQMYEYGLGVKKDLEKALEYYKKAAELG 35 (36)
T ss_pred HHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHcc
Confidence 4555555555432 234455555555555554
No 11
>KOG4014 consensus Uncharacterized conserved protein (contains TPR repeat) [Function unknown]
Probab=92.24 E-value=1.5 Score=39.68 Aligned_cols=97 Identities=12% Similarity=0.010 Sum_probs=72.2
Q ss_pred hcCHHHHHhcCccccc--cc--cCCCCcchHHHHHHHHhcCCchHHHHHHHHHHhc--------c---------------
Q 035556 74 ADDDFVFEHASLDKFY--VV--WPMTDRHASLFLMRCKKSGNPEALYRQGMHDYFS--------L--------------- 126 (261)
Q Consensus 74 ~~~~~Vl~~~sl~~~~--l~--w~~~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~--------~--------------- 126 (261)
.++|.--++++|-... +. -.-+.++++.|+.|+.+-+|.+|||.++-+.+.+ +
T Consensus 102 ~n~~~aC~~~gLl~~~g~~~r~~dpd~~Ka~~y~traCdl~~~~aCf~LS~m~~~g~~k~~t~ap~~g~p~~~~~~~~~~ 181 (248)
T KOG4014|consen 102 ANIPQACRYLGLLHWNGEKDRKADPDSEKAERYMTRACDLEDGEACFLLSTMYMGGKEKFKTNAPGEGKPLDRAELGSLS 181 (248)
T ss_pred cCCHHHHhhhhhhhccCcCCccCCCCcHHHHHHHHHhccCCCchHHHHHHHHHhccchhhcccCCCCCCCcchhhhhhhh
Confidence 5677777777773321 11 0125789999999999999999999999998854 1
Q ss_pred CCcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCc-chHHHHHHH
Q 035556 127 GLTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGS-QFKKQGFEL 170 (261)
Q Consensus 127 ~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~-e~~~~a~~~ 170 (261)
.|+..++++--+|-+.+++.|--+...|+--|.|. .+.++|-.+
T Consensus 182 kDMdka~qfa~kACel~~~~aCAN~SrMyklGDGv~Kde~~Aeky 226 (248)
T KOG4014|consen 182 KDMDKALQFAIKACELDIPQACANVSRMYKLGDGVPKDEDQAEKY 226 (248)
T ss_pred HhHHHHHHHHHHHHhcCChHHHhhHHHHHHccCCCCccHHHHHHH
Confidence 35678899999999999999999999998867775 234444333
No 12
>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=92.01 E-value=0.55 Score=32.90 Aligned_cols=62 Identities=19% Similarity=0.244 Sum_probs=48.6
Q ss_pred CchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 111 NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 111 NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
|+++.+.+|...+. .++-++|+..+.+|.. +.++.+.|++|.+++ ..|. ..++|++.|.++.
T Consensus 2 ~a~~~~~~g~~~~~-~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~-~~~~-~~~~A~~~~~~al 65 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQ-QGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYM-KLGK-DYEEAIEDFEKAL 65 (69)
T ss_dssp SHHHHHHHHHHHHH-TTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHH-HTTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH-HhCc-cHHHHHHHHHHHH
Confidence 67788888887655 5666999999999887 446889999999999 5552 3678888888775
No 13
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=91.97 E-value=0.33 Score=30.48 Aligned_cols=29 Identities=17% Similarity=0.170 Sum_probs=12.6
Q ss_pred hhHHHHH--HHHHhcc-Cc-chHHHHHHHHHHh
Q 035556 146 EATYVYT--IIMLLCC-GS-QFKKQGFELLSSL 174 (261)
Q Consensus 146 ~A~Y~lg--mL~l~~~-G~-e~~~~a~~~f~~~ 174 (261)
.|.|.+| .++.+|. |. .+.++|++||.++
T Consensus 2 ~A~~~lg~~~~~~~g~~g~~~d~~~A~~~~~~A 34 (39)
T PF08238_consen 2 EAQYNLGMYYMYYNGKGGVPKDYEKAFKWYEKA 34 (39)
T ss_dssp HHHHHHHHHHHHHHTSTSSCHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhhhhccCCccccccchHHHHHHH
Confidence 3445555 3333444 22 2345555555443
No 14
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=91.69 E-value=0.28 Score=30.17 Aligned_cols=31 Identities=16% Similarity=0.140 Sum_probs=26.2
Q ss_pred chhHHHHHHHHHhccCc-chHHHHHHHHHHhh
Q 035556 145 PEATYVYTIIMLLCCGS-QFKKQGFELLSSLK 175 (261)
Q Consensus 145 ~~A~Y~lgmL~l~~~G~-e~~~~a~~~f~~~~ 175 (261)
+.|.|.+|.++++|.|. .+.++|+.+|.++-
T Consensus 1 ~~a~~~lg~~~~~G~g~~~d~~~A~~~~~~Aa 32 (36)
T smart00671 1 AEAQYNLGQMYEYGLGVKKDLEKALEYYKKAA 32 (36)
T ss_pred CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHH
Confidence 46899999999988876 46999999998764
No 15
>PF08238 Sel1: Sel1 repeat; InterPro: IPR006597 Sel1-like repeats are tetratricopeptide repeat sequences originally identified in a Caenorhabditis elegans receptor molecule which is a key negative regulator of the Notch pathway []. Mammalian homologues have since been identified although these mainly pancreatic proteins have yet to have a function assigned.; PDB: 2XM6_A 3RJV_A 1OUV_A 1KLX_A.
Probab=91.66 E-value=0.3 Score=30.66 Aligned_cols=28 Identities=29% Similarity=0.357 Sum_probs=18.8
Q ss_pred chHHHHHHHHH--Hhcc----CCcHHHHHHHHHH
Q 035556 112 PEALYRQGMHD--YFSL----GLTNSGFRLLKRA 139 (261)
Q Consensus 112 peA~Y~~Gm~~--~~~~----~~~~~Gl~lL~~A 139 (261)
|+|+|.+|+.. .... .|.++|+.++.+|
T Consensus 1 a~A~~~lg~~~~~~~g~~g~~~d~~~A~~~~~~A 34 (39)
T PF08238_consen 1 AEAQYNLGMYYMYYNGKGGVPKDYEKAFKWYEKA 34 (39)
T ss_dssp HHHHHHHHHHHHHHHTSTSSCHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHhhhhccCCccccccchHHHHHHH
Confidence 68999999444 4333 2347888888765
No 16
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=87.38 E-value=4.7 Score=35.12 Aligned_cols=79 Identities=15% Similarity=0.095 Sum_probs=59.3
Q ss_pred CCcchHHHHHHHHhc--CCchHHHHHHHHHHhccCC--cHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHH
Q 035556 95 TDRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGL--TNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGF 168 (261)
Q Consensus 95 ~~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~--~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~ 168 (261)
+.+.+...+.+++.. .|+++.+..|..+++..++ .++|..+|.+|.. +.++.|.+.+|+.++ -.|. .++|+
T Consensus 88 ~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~-~~g~--~~~Ai 164 (198)
T PRK10370 88 DYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAF-MQAD--YAQAI 164 (198)
T ss_pred CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHH-HcCC--HHHHH
Confidence 345666777777663 4677777777777666665 4899999999876 447899999999999 4443 67899
Q ss_pred HHHHHhhc
Q 035556 169 ELLSSLKS 176 (261)
Q Consensus 169 ~~f~~~~~ 176 (261)
.++.++..
T Consensus 165 ~~~~~aL~ 172 (198)
T PRK10370 165 ELWQKVLD 172 (198)
T ss_pred HHHHHHHh
Confidence 99998874
No 17
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=87.20 E-value=7 Score=31.88 Aligned_cols=90 Identities=19% Similarity=0.243 Sum_probs=65.5
Q ss_pred CcchHHHHHHHHhcCCchHHHHHHHHHH----hccCCcHHHHHHHHHHhhc--C---CchhHHHHHHHHHhccCcchHHH
Q 035556 96 DRHASLFLMRCKKSGNPEALYRQGMHDY----FSLGLTNSGFRLLKRAADK--K---HPEATYVYTIIMLLCCGSQFKKQ 166 (261)
Q Consensus 96 ~~ka~~FL~rCleaGNpeA~Y~~Gm~~~----~~~~~~~~Gl~lL~~AA~~--G---~~~A~Y~lgmL~l~~~G~e~~~~ 166 (261)
...+.+++.+.++.|-.++.-.++++.+ -..|..++++.+|.++... + +....++++|.+. -.|. .++
T Consensus 17 ~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~-~~gr--~~e 93 (120)
T PF12688_consen 17 EEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY-NLGR--PKE 93 (120)
T ss_pred HHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH-HCCC--HHH
Confidence 5678899999999998887777777766 5667779999999998764 3 5578889999888 4443 456
Q ss_pred HHHHHHHhhcccchHHHHHHHHh
Q 035556 167 GFELLSSLKSTYGIRECRTKIRA 189 (261)
Q Consensus 167 a~~~f~~~~~t~~~~ecr~ki~~ 189 (261)
+++++-.+...+ ...++|=|.+
T Consensus 94 Al~~~l~~la~~-~~~y~ra~~~ 115 (120)
T PF12688_consen 94 ALEWLLEALAET-LPRYRRAIRF 115 (120)
T ss_pred HHHHHHHHHHHH-HHHHHHHHHH
Confidence 877776655322 2266666654
No 18
>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=85.95 E-value=8 Score=28.85 Aligned_cols=75 Identities=20% Similarity=0.232 Sum_probs=50.1
Q ss_pred cchHHHHHHHHhcC--C---chHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CC---chhHHHHHHHHHhccCcchHHH
Q 035556 97 RHASLFLMRCKKSG--N---PEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KH---PEATYVYTIIMLLCCGSQFKKQ 166 (261)
Q Consensus 97 ~ka~~FL~rCleaG--N---peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~---~~A~Y~lgmL~l~~~G~e~~~~ 166 (261)
..+...+...+... + +++.|..|.. ++..++.+.|..++..+... ++ +.+.|.+|.++. ..|. .++
T Consensus 19 ~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~-~~~~--~~~ 94 (119)
T TIGR02795 19 ADAIQAFQAFLKKYPKSTYAPNAHYWLGEA-YYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQ-ELGD--KEK 94 (119)
T ss_pred HHHHHHHHHHHHHCCCccccHHHHHHHHHH-HHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHH-HhCC--hHH
Confidence 44566666666532 2 3577777765 45556668899999987752 33 567899999988 4443 566
Q ss_pred HHHHHHHhh
Q 035556 167 GFELLSSLK 175 (261)
Q Consensus 167 a~~~f~~~~ 175 (261)
++++|.++.
T Consensus 95 A~~~~~~~~ 103 (119)
T TIGR02795 95 AKATLQQVI 103 (119)
T ss_pred HHHHHHHHH
Confidence 777777765
No 19
>KOG4014 consensus Uncharacterized conserved protein (contains TPR repeat) [Function unknown]
Probab=85.64 E-value=2 Score=38.75 Aligned_cols=82 Identities=17% Similarity=0.229 Sum_probs=54.4
Q ss_pred HHHHHHhcCCchHHHHHHHHHHhccC----CcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCc---c-hHHHHHHHHHH
Q 035556 102 FLMRCKKSGNPEALYRQGMHDYFSLG----LTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGS---Q-FKKQGFELLSS 173 (261)
Q Consensus 102 FL~rCleaGNpeA~Y~~Gm~~~~~~~----~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~---e-~~~~a~~~f~~ 173 (261)
|-.-|-+.+.|..||-.||-.+...+ +...+++.+..|-++..+.|-..+|+|..||+-. + +..+|.+++++
T Consensus 58 ~K~nCden~y~kSCyKyG~y~~~GKgG~~~~l~~a~r~~~~aC~~n~~~aC~~~gLl~~~g~~~r~~dpd~~Ka~~y~tr 137 (248)
T KOG4014|consen 58 FKKNCDENSYPKSCYKYGMYMLAGKGGDDASLSKAIRPMKIACDANIPQACRYLGLLHWNGEKDRKADPDSEKAERYMTR 137 (248)
T ss_pred HHhcccccCCcHHHHHhhhhhhcccCCCccCHHHHHHHHHHHhccCCHHHHhhhhhhhccCcCCccCCCCcHHHHHHHHH
Confidence 44456777777777777776664433 3356777777777777777777777777766654 1 26677777777
Q ss_pred hhcccchHHH
Q 035556 174 LKSTYGIREC 183 (261)
Q Consensus 174 ~~~t~~~~ec 183 (261)
+=.-.....|
T Consensus 138 aCdl~~~~aC 147 (248)
T KOG4014|consen 138 ACDLEDGEAC 147 (248)
T ss_pred hccCCCchHH
Confidence 7666666666
No 20
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=84.97 E-value=6.5 Score=32.29 Aligned_cols=77 Identities=13% Similarity=-0.000 Sum_probs=56.0
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
.+.+...+.+++.. .++++.+.+|.... ..++.++|...+.+|.. ++++.+.|.+|+.+. -.|. .++|++.|
T Consensus 40 ~~~A~~~~~~al~~~P~~~~a~~~lg~~~~-~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~-~~g~--~~eAi~~~ 115 (144)
T PRK15359 40 YSRAVIDFSWLVMAQPWSWRAHIALAGTWM-MLKEYTTAINFYGHALMLDASHPEPVYQTGVCLK-MMGE--PGLAREAF 115 (144)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHHHHHH-HHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHH-HcCC--HHHHHHHH
Confidence 34566777777665 45566666666544 35555899999999877 668999999999999 4443 56788889
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
..+..
T Consensus 116 ~~Al~ 120 (144)
T PRK15359 116 QTAIK 120 (144)
T ss_pred HHHHH
Confidence 88874
No 21
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=81.46 E-value=12 Score=35.53 Aligned_cols=90 Identities=16% Similarity=0.048 Sum_probs=62.4
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+..+++. .|+.+.+.+|...+ ..++..+|+..+.+|.. +.++.|.|.+|++++ ..|. .++|+++|
T Consensus 18 ~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~-~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~-~lg~--~~eA~~~~ 93 (356)
T PLN03088 18 FALAVDLYTQAIDLDPNNAELYADRAQANI-KLGNFTEAVADANKAIELDPSLAKAYLRKGTACM-KLEE--YQTAKAAL 93 (356)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHH-HhCC--HHHHHHHH
Confidence 34566777777654 45667777776554 45677899999999855 457889999999999 5553 56788888
Q ss_pred HHhhccc--------chHHHHHHHHh
Q 035556 172 SSLKSTY--------GIRECRTKIRA 189 (261)
Q Consensus 172 ~~~~~t~--------~~~ecr~ki~~ 189 (261)
.++..-. .+..|..+++.
T Consensus 94 ~~al~l~P~~~~~~~~l~~~~~kl~~ 119 (356)
T PLN03088 94 EKGASLAPGDSRFTKLIKECDEKIAE 119 (356)
T ss_pred HHHHHhCCCCHHHHHHHHHHHHHHHh
Confidence 8876321 45566666643
No 22
>PRK11906 transcriptional regulator; Provisional
Probab=81.18 E-value=6.7 Score=39.27 Aligned_cols=84 Identities=12% Similarity=0.006 Sum_probs=61.4
Q ss_pred HHHHHHH--HhcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 100 SLFLMRC--KKSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 100 ~~FL~rC--leaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.....++ ++.+||.|++..|+...+..+ ...|..+|++|.... .+.|.|.+|++.+ -.|. .++|+++++++.
T Consensus 324 ~~~A~rAveld~~Da~a~~~~g~~~~~~~~-~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~-~~G~--~~~a~~~i~~al 399 (458)
T PRK11906 324 LELLDYVSDITTVDGKILAIMGLITGLSGQ-AKVSHILFEQAKIHSTDIASLYYYRALVHF-HNEK--IEEARICIDKSL 399 (458)
T ss_pred HHHHHHHHhcCCCCHHHHHHHHHHHHhhcc-hhhHHHHHHHHhhcCCccHHHHHHHHHHHH-HcCC--HHHHHHHHHHHh
Confidence 3444444 456789999999998877766 789999999987754 5888999999998 4443 567988998866
Q ss_pred cccchHHHHHHHHhhhh
Q 035556 176 STYGIRECRTKIRAGVI 192 (261)
Q Consensus 176 ~t~~~~ecr~ki~~~~i 192 (261)
.-+ ..|++.+++
T Consensus 400 rLs-----P~~~~~~~~ 411 (458)
T PRK11906 400 QLE-----PRRRKAVVI 411 (458)
T ss_pred ccC-----chhhHHHHH
Confidence 433 355555444
No 23
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=80.50 E-value=4.1 Score=28.14 Aligned_cols=50 Identities=16% Similarity=0.268 Sum_probs=39.0
Q ss_pred HhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 123 YFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 123 ~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
++..++-++|+..+.++.... ++.|.|.+|.+++ -.|. .++|+++|.++.
T Consensus 7 ~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~-~~g~--~~~A~~~~~~a~ 58 (65)
T PF13432_consen 7 LYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILY-QQGR--YDEALAYYERAL 58 (65)
T ss_dssp HHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHH-HTT---HHHHHHHHHHHH
T ss_pred HHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 456667789999999987754 6899999999999 5554 567888888775
No 24
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=79.15 E-value=23 Score=27.46 Aligned_cols=77 Identities=12% Similarity=0.007 Sum_probs=53.3
Q ss_pred CcchHHHHHHHHh--cCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKK--SGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rCle--aGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+..+++ ..|+++.+..|...+ ..++..++...+.++.... ++...|.+|.+++ -.|. .++|+++|
T Consensus 33 ~~~A~~~~~~~~~~~p~~~~~~~~la~~~~-~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~-~~g~--~~~A~~~~ 108 (135)
T TIGR02552 33 YDEALKLFQLLAAYDPYNSRYWLGLAACCQ-MLKEYEEAIDAYALAAALDPDDPRPYFHAAECLL-ALGE--PESALKAL 108 (135)
T ss_pred HHHHHHHHHHHHHhCCCcHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH-HcCC--HHHHHHHH
Confidence 3456667777655 345567777765544 3355588898888875543 5788999999999 4443 67888888
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
..+..
T Consensus 109 ~~al~ 113 (135)
T TIGR02552 109 DLAIE 113 (135)
T ss_pred HHHHH
Confidence 88873
No 25
>PRK12370 invasion protein regulator; Provisional
Probab=78.39 E-value=11 Score=37.92 Aligned_cols=76 Identities=17% Similarity=0.191 Sum_probs=55.7
Q ss_pred cchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 97 RHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 97 ~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
..+...+.++++. +|+++.+..|...+ ..++.++|...+.+|.. +.++.|.|.+|.+++ -.|. .++|+++|.
T Consensus 321 ~~A~~~~~~Al~ldP~~~~a~~~lg~~~~-~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~-~~G~--~~eAi~~~~ 396 (553)
T PRK12370 321 IKAKEHAIKATELDHNNPQALGLLGLINT-IHSEYIVGSLLFKQANLLSPISADIKYYYGWNLF-MAGQ--LEEALQTIN 396 (553)
T ss_pred HHHHHHHHHHHhcCCCCHHHHHHHHHHHH-HccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCC--HHHHHHHHH
Confidence 4566777777764 56778888887655 44566899999998665 446778999999988 4443 567888888
Q ss_pred Hhhc
Q 035556 173 SLKS 176 (261)
Q Consensus 173 ~~~~ 176 (261)
++..
T Consensus 397 ~Al~ 400 (553)
T PRK12370 397 ECLK 400 (553)
T ss_pred HHHh
Confidence 8763
No 26
>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional
Probab=76.41 E-value=2.4 Score=41.35 Aligned_cols=37 Identities=24% Similarity=0.486 Sum_probs=33.4
Q ss_pred CCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcC
Q 035556 38 ESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADD 76 (261)
Q Consensus 38 ~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~ 76 (261)
..||+|||..|+.++. +..|+..+..+|+..|+++.-
T Consensus 5 s~Lp~dll~~i~~~l~--~~~d~~~~~~vC~sWr~a~~~ 41 (373)
T PLN03215 5 STLPEELLHMIAGRLF--SNVELKRFRSICRSWRSSVSG 41 (373)
T ss_pred hhCCHHHHHHHHhhCC--cHHHHHHHHhhhhhHHHhccc
Confidence 4699999999999996 588999999999999998764
No 27
>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=76.04 E-value=14 Score=25.45 Aligned_cols=51 Identities=25% Similarity=0.291 Sum_probs=38.8
Q ss_pred ccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhhccc
Q 035556 125 SLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLKSTY 178 (261)
Q Consensus 125 ~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~t~ 178 (261)
..++-++|+.++.++.. +++..+.|.+|.+++ -.|. .++|.+++.++....
T Consensus 3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~-~~g~--~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYL-KQGQ--YDEAEELLERLLKQD 55 (68)
T ss_dssp HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHH-HTT---HHHHHHHHHCCHGGG
T ss_pred hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HcCC--HHHHHHHHHHHHHHC
Confidence 34556889999998755 568899999999999 4443 678888898887544
No 28
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=75.39 E-value=8.4 Score=28.18 Aligned_cols=75 Identities=17% Similarity=0.324 Sum_probs=49.3
Q ss_pred cchHHHHHHHHhcCC--chHHHHHHHHHH-hccCCcHHHHHHHHHH-hhcCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 97 RHASLFLMRCKKSGN--PEALYRQGMHDY-FSLGLTNSGFRLLKRA-ADKKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 97 ~ka~~FL~rCleaGN--peA~Y~~Gm~~~-~~~~~~~~Gl~lL~~A-A~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
..+..++.+.++..+ ++..|...+-.. |..++-.+|+.++.+. ....+....|.+|..++ -.|. .++|++.|.
T Consensus 6 ~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~-~l~~--y~eAi~~l~ 82 (84)
T PF12895_consen 6 ENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLL-KLGK--YEEAIKALE 82 (84)
T ss_dssp HHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHH-HTT---HHHHHHHHH
T ss_pred HHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-HhCC--HHHHHHHHh
Confidence 456777888887554 245555533333 6666668999999773 22346788999999888 4443 567888776
Q ss_pred Hh
Q 035556 173 SL 174 (261)
Q Consensus 173 ~~ 174 (261)
++
T Consensus 83 ~~ 84 (84)
T PF12895_consen 83 KA 84 (84)
T ss_dssp HH
T ss_pred cC
Confidence 53
No 29
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=75.10 E-value=23 Score=28.97 Aligned_cols=76 Identities=9% Similarity=0.022 Sum_probs=57.8
Q ss_pred CcchHHHHHHHHhcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELLSS 173 (261)
Q Consensus 96 ~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~ 173 (261)
+.-.+..+.++++ -+|+..|..|... +..++..+++..+.+|... .+..+.+.+|.++. -.|. .++|+..|.+
T Consensus 9 ~~~~~~~~~~al~-~~p~~~~~~g~~~-~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~-~~g~--~~~A~~~y~~ 83 (144)
T PRK15359 9 NKIPEDILKQLLS-VDPETVYASGYAS-WQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWM-MLKE--YTTAINFYGH 83 (144)
T ss_pred cCCHHHHHHHHHH-cCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHH-HHhh--HHHHHHHHHH
Confidence 3445678888887 7788888777654 6777778899999887664 57889999999888 4443 6678899998
Q ss_pred hhc
Q 035556 174 LKS 176 (261)
Q Consensus 174 ~~~ 176 (261)
+..
T Consensus 84 Al~ 86 (144)
T PRK15359 84 ALM 86 (144)
T ss_pred HHh
Confidence 873
No 30
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=72.68 E-value=13 Score=37.29 Aligned_cols=66 Identities=17% Similarity=0.131 Sum_probs=50.3
Q ss_pred HhcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcC--Cch---hHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 107 KKSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPE---ATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 107 leaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~---A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
.+-.++++++.+|+.+ +..++.++|+..+.+|.... +++ |.|++|..|. ..|. .++|++.|.++.+
T Consensus 70 ~dP~~a~a~~NLG~AL-~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya-~LGr--~dEAla~LrrALe 140 (453)
T PLN03098 70 ADVKTAEDAVNLGLSL-FSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHA-YREE--GKKAADCLRTALR 140 (453)
T ss_pred CCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHH-HcCC--HHHHHHHHHHHHH
Confidence 4558889999999876 45677799999999987743 343 4999999999 5554 5667777777765
No 31
>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=72.28 E-value=20 Score=26.65 Aligned_cols=60 Identities=15% Similarity=0.134 Sum_probs=43.2
Q ss_pred chHHHHHHHHHHhccCCcHHHHHHHHHHhhcC--C---chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 112 PEALYRQGMHDYFSLGLTNSGFRLLKRAADKK--H---PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 112 peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~---~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+++.|..|...+- .++.+++...+.++.... + +.|.|.+|.+++ ..|. .++|+++|..+.
T Consensus 2 ~~~~~~~~~~~~~-~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~~~--~~~A~~~~~~~~ 66 (119)
T TIGR02795 2 EEAYYDAALLVLK-AGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYY-AQGK--YADAAKAFLAVV 66 (119)
T ss_pred cHHHHHHHHHHHH-cCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH-hhcc--HHHHHHHHHHHH
Confidence 4667777766544 566689999999987532 2 358899999999 4443 567888888776
No 32
>PRK11189 lipoprotein NlpI; Provisional
Probab=70.05 E-value=17 Score=33.27 Aligned_cols=74 Identities=11% Similarity=0.024 Sum_probs=43.0
Q ss_pred chHHHHHHHHh--cCCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHH
Q 035556 98 HASLFLMRCKK--SGNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSS 173 (261)
Q Consensus 98 ka~~FL~rCle--aGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~ 173 (261)
.+...+.++++ -.++++.+..|.. +...++.++|+..+.+|.. +.+..|.+++|+++. -.|. .++|++.|.+
T Consensus 82 ~A~~~~~~Al~l~P~~~~a~~~lg~~-~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~-~~g~--~~eA~~~~~~ 157 (296)
T PRK11189 82 LARNDFSQALALRPDMADAYNYLGIY-LTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALY-YGGR--YELAQDDLLA 157 (296)
T ss_pred HHHHHHHHHHHcCCCCHHHHHHHHHH-HHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCC--HHHHHHHHHH
Confidence 34444555544 2345666666653 3445555777777777644 455677777777776 3332 4556666666
Q ss_pred hh
Q 035556 174 LK 175 (261)
Q Consensus 174 ~~ 175 (261)
+.
T Consensus 158 al 159 (296)
T PRK11189 158 FY 159 (296)
T ss_pred HH
Confidence 65
No 33
>PF13013 F-box-like_2: F-box-like domain
Probab=62.71 E-value=9.5 Score=30.97 Aligned_cols=41 Identities=20% Similarity=0.237 Sum_probs=31.8
Q ss_pred CCCCCCCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcC
Q 035556 33 LGTSIESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADD 76 (261)
Q Consensus 33 ~~~~~~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~ 76 (261)
++..+..||+||+..|+..-. ..++..+..+|+.++.....
T Consensus 18 ~~ltl~DLP~ELl~~I~~~C~---~~~l~~l~~~~~~~r~~r~~ 58 (109)
T PF13013_consen 18 QSLTLLDLPWELLQLIFDYCN---DPILLALSRTCRAYRSWRDH 58 (109)
T ss_pred cccchhhChHHHHHHHHhhcC---cHHHHHHHHHHHHHHHHHHH
Confidence 344577899999999998877 78888888888866665544
No 34
>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD. ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.
Probab=62.56 E-value=28 Score=27.01 Aligned_cols=61 Identities=10% Similarity=0.061 Sum_probs=43.8
Q ss_pred CchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 111 NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 111 NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
|+++.+..|...+ ..++.++|.+++..+.. +.++.+.+.+|.+++ -.| ..++|+++|.++.
T Consensus 16 ~~~~~~~~a~~~~-~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~-~~~--~~~~A~~~~~~~~ 78 (135)
T TIGR02552 16 QLEQIYALAYNLY-QQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQ-MLK--EYEEAIDAYALAA 78 (135)
T ss_pred hHHHHHHHHHHHH-HcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHH-HHH--HHHHHHHHHHHHH
Confidence 5566666666544 55677899999998765 446789999999998 222 2567888888875
No 35
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=62.13 E-value=41 Score=30.95 Aligned_cols=72 Identities=17% Similarity=0.302 Sum_probs=48.6
Q ss_pred chHHHHHHHHHHhccCCcHHHHHHHHHHhh--cC---CchhHHHHHHHHHhccCcchHHHHHHHHHHhh----cccchHH
Q 035556 112 PEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KK---HPEATYVYTIIMLLCCGSQFKKQGFELLSSLK----STYGIRE 182 (261)
Q Consensus 112 peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G---~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~----~t~~~~e 182 (261)
|+|.|.+|-.. +..++.++|+..+..+.. +. .+.|.|.+|.++. -.|. .++|.+.|..+. ++.-..+
T Consensus 180 ~~A~y~LG~~y-~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~-~~g~--~~~A~~~~~~vi~~yP~s~~a~~ 255 (263)
T PRK10803 180 PNANYWLGQLN-YNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQ-DKGD--TAKAKAVYQQVIKKYPGTDGAKQ 255 (263)
T ss_pred HHHHHHHHHHH-HHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHH-HcCC--HHHHHHHHHHHHHHCcCCHHHHH
Confidence 46888888754 456677888888888874 22 3778888888887 3332 567777777776 3445555
Q ss_pred HHHHH
Q 035556 183 CRTKI 187 (261)
Q Consensus 183 cr~ki 187 (261)
.++|+
T Consensus 256 A~~rL 260 (263)
T PRK10803 256 AQKRL 260 (263)
T ss_pred HHHHH
Confidence 65555
No 36
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=58.71 E-value=47 Score=36.40 Aligned_cols=76 Identities=12% Similarity=-0.025 Sum_probs=56.1
Q ss_pred CcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
.+.+..++.++++.. |+++.+..|+.+. ..++.++++.++.+|.. +.++.+.|++|+++. ..|. .++|+..|
T Consensus 625 ~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~-~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~-~lGd--~~eA~~~l 700 (987)
T PRK09782 625 VPAAVSDLRAALELEPNNSNYQAALGYALW-DSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQ-RLDD--MAATQHYA 700 (987)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCC--HHHHHHHH
Confidence 445667777777644 4566666665544 45666899999999875 568999999999999 6664 56788888
Q ss_pred HHhh
Q 035556 172 SSLK 175 (261)
Q Consensus 172 ~~~~ 175 (261)
+++.
T Consensus 701 ~~Al 704 (987)
T PRK09782 701 RLVI 704 (987)
T ss_pred HHHH
Confidence 8886
No 37
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=58.51 E-value=48 Score=21.76 Aligned_cols=75 Identities=13% Similarity=0.153 Sum_probs=38.5
Q ss_pred cchHHHHHHHHhcCC--chHHHHHHHHHHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 97 RHASLFLMRCKKSGN--PEALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 97 ~ka~~FL~rCleaGN--peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
..+..++...++... +.+.+..|...+.. ++.+.|..++.++.... +..+.+.+|.+++ ..|. .+++.++|.
T Consensus 17 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~--~~~a~~~~~ 92 (100)
T cd00189 17 DEALEYYEKALELDPDNADAYYNLAAAYYKL-GKYEEALEDYEKALELDPDNAKAYYNLGLAYY-KLGK--YEEALEAYE 92 (100)
T ss_pred HHHHHHHHHHHhcCCccHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhCCCcchhHHHHHHHHHH-HHHh--HHHHHHHHH
Confidence 345556666554332 23455555544332 44467777777665432 3345666666666 2222 445555555
Q ss_pred Hhh
Q 035556 173 SLK 175 (261)
Q Consensus 173 ~~~ 175 (261)
.+.
T Consensus 93 ~~~ 95 (100)
T cd00189 93 KAL 95 (100)
T ss_pred HHH
Confidence 543
No 38
>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=57.76 E-value=86 Score=25.27 Aligned_cols=77 Identities=13% Similarity=0.075 Sum_probs=45.7
Q ss_pred CcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhhc----CCchhHHHHHHHHHhccCcchHHHHHH
Q 035556 96 DRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAADK----KHPEATYVYTIIMLLCCGSQFKKQGFE 169 (261)
Q Consensus 96 ~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~----G~~~A~Y~lgmL~l~~~G~e~~~~a~~ 169 (261)
...+...+.+.++.. ++.+.+..|... +..++.+++...+.++... ....+.+.+|.+++ -.|. .+++.+
T Consensus 81 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~-~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~--~~~A~~ 156 (234)
T TIGR02521 81 LEKAEDSFRRALTLNPNNGDVLNNYGTFL-CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCAL-KAGD--FDKAEK 156 (234)
T ss_pred HHHHHHHHHHHHhhCCCCHHHHHHHHHHH-HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHH-HcCC--HHHHHH
Confidence 345666777776543 344444544433 4455667777777777653 23456777777777 4332 456777
Q ss_pred HHHHhhc
Q 035556 170 LLSSLKS 176 (261)
Q Consensus 170 ~f~~~~~ 176 (261)
+|.++..
T Consensus 157 ~~~~~~~ 163 (234)
T TIGR02521 157 YLTRALQ 163 (234)
T ss_pred HHHHHHH
Confidence 7776664
No 39
>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=57.62 E-value=59 Score=32.38 Aligned_cols=79 Identities=10% Similarity=0.044 Sum_probs=54.4
Q ss_pred CCcchHHHHHHHHhcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 95 TDRHASLFLMRCKKSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 95 ~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
....+...+.++++..+..+.....+..++.....++++.++.+|.. +.++.+.+.+|.++. ..|. .++|+++|.
T Consensus 785 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~-~~g~--~~~A~~~~~ 861 (899)
T TIGR02917 785 DYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLV-EKGE--ADRALPLLR 861 (899)
T ss_pred CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHHHHHHHHH-HcCC--HHHHHHHHH
Confidence 45678888888888765555544554444333333779999988765 456778888898888 4443 677888888
Q ss_pred Hhhc
Q 035556 173 SLKS 176 (261)
Q Consensus 173 ~~~~ 176 (261)
++..
T Consensus 862 ~a~~ 865 (899)
T TIGR02917 862 KAVN 865 (899)
T ss_pred HHHh
Confidence 8874
No 40
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=57.28 E-value=41 Score=27.94 Aligned_cols=14 Identities=14% Similarity=0.109 Sum_probs=6.6
Q ss_pred CCcHHHHHHHHHHh
Q 035556 127 GLTNSGFRLLKRAA 140 (261)
Q Consensus 127 ~~~~~Gl~lL~~AA 140 (261)
++.++|+.++.+|.
T Consensus 49 g~~~~A~~~~~~al 62 (172)
T PRK02603 49 GEYAEALENYEEAL 62 (172)
T ss_pred CCHHHHHHHHHHHH
Confidence 44444555554444
No 41
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=57.23 E-value=35 Score=35.21 Aligned_cols=100 Identities=8% Similarity=-0.043 Sum_probs=63.8
Q ss_pred HHHHhhcCHHHHHhcCccccccccCCCCcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCC
Q 035556 69 YFLQAADDDFVFEHASLDKFYVVWPMTDRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKH 144 (261)
Q Consensus 69 ~f~~l~~~~~Vl~~~sl~~~~l~w~~~~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~ 144 (261)
.....-.+++++..+....+.. .....+...+.+.++. +++++.+.+|... ...++.++|+..+.+|.. +++
T Consensus 68 ~l~~~p~~~~~l~~l~~~~l~~---g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l-~~~g~~~~Ai~~l~~Al~l~P~~ 143 (656)
T PRK15174 68 RVLTAKNGRDLLRRWVISPLAS---SQPDAVLQVVNKLLAVNVCQPEDVLLVASVL-LKSKQYATVADLAEQAWLAFSGN 143 (656)
T ss_pred HHHhCCCchhHHHHHhhhHhhc---CCHHHHHHHHHHHHHhCCCChHHHHHHHHHH-HHcCCHHHHHHHHHHHHHhCCCc
Confidence 3344456666666666543322 2345677788887765 4566776666543 455666888888888776 556
Q ss_pred chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 145 PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 145 ~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+.+.+.+|.++. ..|. .++|++.+.++.
T Consensus 144 ~~a~~~la~~l~-~~g~--~~eA~~~~~~~~ 171 (656)
T PRK15174 144 SQIFALHLRTLV-LMDK--ELQAISLARTQA 171 (656)
T ss_pred HHHHHHHHHHHH-HCCC--hHHHHHHHHHHH
Confidence 778888888877 4443 456666676554
No 42
>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=56.76 E-value=88 Score=25.22 Aligned_cols=77 Identities=16% Similarity=0.157 Sum_probs=49.1
Q ss_pred CcchHHHHHHHHhc----CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHH
Q 035556 96 DRHASLFLMRCKKS----GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFE 169 (261)
Q Consensus 96 ~~ka~~FL~rClea----GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~ 169 (261)
...+...+.+.++. .++.+.+..|.. +...++.+++..++.++... .++.+.+.+|.++. ..|. .++|.+
T Consensus 115 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~-~~~~--~~~A~~ 190 (234)
T TIGR02521 115 YEQAMQQFEQAIEDPLYPQPARSLENAGLC-ALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYY-LRGQ--YKDARA 190 (234)
T ss_pred HHHHHHHHHHHHhccccccchHHHHHHHHH-HHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHH-HcCC--HHHHHH
Confidence 34566677777653 234566666654 34556667888888887653 34667778888877 4443 456777
Q ss_pred HHHHhhc
Q 035556 170 LLSSLKS 176 (261)
Q Consensus 170 ~f~~~~~ 176 (261)
+|.++..
T Consensus 191 ~~~~~~~ 197 (234)
T TIGR02521 191 YLERYQQ 197 (234)
T ss_pred HHHHHHH
Confidence 7776653
No 43
>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=55.28 E-value=67 Score=31.99 Aligned_cols=76 Identities=9% Similarity=0.003 Sum_probs=49.1
Q ss_pred CcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+...++.. |+++.+..|.. +...++..+|..++.++... .++.+.+.+|.++. -.|. .+|++++
T Consensus 752 ~~~A~~~~~~~l~~~~~~~~~~~~la~~-~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~-~~~~---~~A~~~~ 826 (899)
T TIGR02917 752 TAEAVKTLEAWLKTHPNDAVLRTALAEL-YLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYL-ELKD---PRALEYA 826 (899)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHH-HHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcCc---HHHHHHH
Confidence 445667777776643 44455555542 34567778999999887654 35667777888777 3332 4488888
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
.++..
T Consensus 827 ~~~~~ 831 (899)
T TIGR02917 827 EKALK 831 (899)
T ss_pred HHHHh
Confidence 87763
No 44
>PRK12370 invasion protein regulator; Provisional
Probab=54.60 E-value=68 Score=32.16 Aligned_cols=45 Identities=11% Similarity=0.194 Sum_probs=24.3
Q ss_pred CcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhh
Q 035556 96 DRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD 141 (261)
Q Consensus 96 ~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~ 141 (261)
...+...+.++++.+ |+++.|..|..++. .++.++|+.++.+|..
T Consensus 354 ~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~-~G~~~eAi~~~~~Al~ 400 (553)
T PRK12370 354 YIVGSLLFKQANLLSPISADIKYYYGWNLFM-AGQLEEALQTINECLK 400 (553)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHh
Confidence 345666666655532 23456666654433 3444666666666554
No 45
>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=53.48 E-value=61 Score=32.69 Aligned_cols=74 Identities=14% Similarity=0.077 Sum_probs=34.7
Q ss_pred chHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHHHH
Q 035556 98 HASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELLSS 173 (261)
Q Consensus 98 ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~ 173 (261)
.+...+..+++. .|+++.|..|.. ++..++-++|+..+.+|... .+..+.+.+|.++. ..|. .++|+..|.+
T Consensus 383 eA~~~~~~al~~~p~~~~~~~~lg~~-~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~-~~g~--~~eA~~~~~~ 458 (615)
T TIGR00990 383 KAEEDFDKALKLNSEDPDIYYHRAQL-HFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQY-KEGS--IASSMATFRR 458 (615)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHH-HCCC--HHHHHHHHHH
Confidence 344444444442 345555555543 23344445555555555432 23445555555555 3332 3445555554
Q ss_pred hh
Q 035556 174 LK 175 (261)
Q Consensus 174 ~~ 175 (261)
+.
T Consensus 459 al 460 (615)
T TIGR00990 459 CK 460 (615)
T ss_pred HH
Confidence 43
No 46
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=50.14 E-value=31 Score=23.53 Aligned_cols=46 Identities=26% Similarity=0.278 Sum_probs=34.6
Q ss_pred CcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhhc
Q 035556 96 DRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAADK 142 (261)
Q Consensus 96 ~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~ 142 (261)
...+...+...++.. |+++.|.+|...+ ..++.++|+..+.++...
T Consensus 13 ~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~-~~g~~~~A~~~~~~a~~~ 60 (65)
T PF13432_consen 13 YDEAIAAFEQALKQDPDNPEAWYLLGRILY-QQGRYDEALAYYERALEL 60 (65)
T ss_dssp HHHHHHHHHHHHCCSTTHHHHHHHHHHHHH-HTT-HHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHCCCCHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHH
Confidence 345677777777765 7888999998777 667778999999988654
No 47
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=50.03 E-value=70 Score=27.75 Aligned_cols=78 Identities=12% Similarity=0.054 Sum_probs=52.8
Q ss_pred cchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 97 RHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 97 ~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
+.....+...++. +|+++.+.+|... ...++.++|+..+.+|.. +.++.+.+.+|.+++.-.|.....++.+.|.
T Consensus 56 ~~~i~~l~~~L~~~P~~~~~w~~Lg~~~-~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~ 134 (198)
T PRK10370 56 EAQLQALQDKIRANPQNSEQWALLGEYY-LWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMID 134 (198)
T ss_pred HHHHHHHHHHHHHCCCCHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHH
Confidence 3444556665553 6778888887644 356666899999999877 4468888999986541333212467888888
Q ss_pred Hhh
Q 035556 173 SLK 175 (261)
Q Consensus 173 ~~~ 175 (261)
++.
T Consensus 135 ~al 137 (198)
T PRK10370 135 KAL 137 (198)
T ss_pred HHH
Confidence 886
No 48
>PF14852 Fis1_TPR_N: Fis1 N-terminal tetratricopeptide repeat; PDB: 1IYG_A 3UUX_C 1Y8M_A 2PQR_A 2PQN_A 3O48_A 1PC2_A 1NZN_A.
Probab=49.84 E-value=31 Score=22.40 Aligned_cols=30 Identities=17% Similarity=0.336 Sum_probs=24.4
Q ss_pred hhHHHHHHHHHhccCc-chHHHHHHHHHHhhc
Q 035556 146 EATYVYTIIMLLCCGS-QFKKQGFELLSSLKS 176 (261)
Q Consensus 146 ~A~Y~lgmL~l~~~G~-e~~~~a~~~f~~~~~ 176 (261)
.+.|+||--++ .+.. ++.++|+.+++.+..
T Consensus 2 qt~FnyAw~Lv-~S~~~~d~~~Gi~lLe~l~~ 32 (35)
T PF14852_consen 2 QTQFNYAWGLV-KSNNREDQQEGIALLEELYR 32 (35)
T ss_dssp HHHHHHHHHHH-HSSSHHHHHHHHHHHHHHCC
T ss_pred cchhHHHHHHh-cCCCHHHHHHHHHHHHHHHh
Confidence 47899999999 7776 578999999987754
No 49
>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C
Probab=49.45 E-value=72 Score=20.85 Aligned_cols=58 Identities=19% Similarity=0.214 Sum_probs=39.2
Q ss_pred HHHHHHHHHHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 114 ALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 114 A~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+.|..|...+ ..++.++++..+.++.... +..+.+.+|.+++ -.+ ..++|+++|..+.
T Consensus 2 ~~~~~a~~~~-~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~--~~~~a~~~~~~~~ 61 (100)
T cd00189 2 ALLNLGNLYY-KLGDYDEALEYYEKALELDPDNADAYYNLAAAYY-KLG--KYEEALEDYEKAL 61 (100)
T ss_pred HHHHHHHHHH-HHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHH-HHH--HHHHHHHHHHHHH
Confidence 3455555444 3566688999999887643 3467888888888 222 2567888888776
No 50
>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=49.41 E-value=46 Score=23.50 Aligned_cols=48 Identities=13% Similarity=0.123 Sum_probs=31.1
Q ss_pred ccCCcHHHHHHHHHHhh----cCC-----chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 125 SLGLTNSGFRLLKRAAD----KKH-----PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 125 ~~~~~~~Gl~lL~~AA~----~G~-----~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
..++-++|+.++.+|.. .|+ +.+.+++|.++. ..|. .++|+++|.++.
T Consensus 17 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~-~~g~--~~~A~~~~~~al 73 (78)
T PF13424_consen 17 ELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYY-RLGD--YEEALEYYQKAL 73 (78)
T ss_dssp HTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHH-HTTH--HHHHHHHHHHHH
T ss_pred HcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 45555777777777663 221 556777888777 5553 677888887765
No 51
>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=48.30 E-value=32 Score=20.57 Aligned_cols=28 Identities=18% Similarity=0.167 Sum_probs=21.0
Q ss_pred chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 145 PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 145 ~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+.+.|.+|++++ -.|. .++|++.|.++.
T Consensus 1 a~~~~~~g~~~~-~~~~--~~~A~~~~~~al 28 (34)
T PF00515_consen 1 AEAYYNLGNAYF-QLGD--YEEALEYYQRAL 28 (34)
T ss_dssp HHHHHHHHHHHH-HTT---HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH-HhCC--chHHHHHHHHHH
Confidence 357899999999 5543 677888888876
No 52
>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=48.25 E-value=32 Score=20.23 Aligned_cols=28 Identities=18% Similarity=0.169 Sum_probs=20.8
Q ss_pred chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 145 PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 145 ~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+.+.|.+|.+++ -.|. .++|+++|.++.
T Consensus 1 a~~~~~lg~~~~-~~~~--~~~A~~~~~~al 28 (34)
T PF07719_consen 1 AEAWYYLGQAYY-QLGN--YEEAIEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHHH-HTT---HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHH-HhCC--HHHHHHHHHHHH
Confidence 357889999999 4443 678888888775
No 53
>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]
Probab=48.09 E-value=17 Score=35.74 Aligned_cols=54 Identities=15% Similarity=0.296 Sum_probs=44.9
Q ss_pred CCCCCCCC----hHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHhcCcccccc
Q 035556 34 GTSIESLP----HALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEHASLDKFYV 90 (261)
Q Consensus 34 ~~~~~~LP----dDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl~~~~l 90 (261)
.+++..|| |.+...|+.-+- -.+|....++||+.+.+..+|...+.+=......
T Consensus 72 rDFi~~lP~~gl~hi~e~ilsyld---~~sLc~celv~k~W~r~l~dg~~WKkLie~~vr~ 129 (499)
T KOG0281|consen 72 RDFITALPEQGLDHIAENILSYLD---ALSLCACELVCKEWKRVLSDGMLWKKLIERMVRT 129 (499)
T ss_pred HHHHHhcccccHHHHHHHHHHhcc---hhhhhHHHHHHHHHHHHhccchHHHHHHHHhcch
Confidence 46888999 777777777776 6889999999999999999999999876655543
No 54
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=47.52 E-value=30 Score=32.96 Aligned_cols=40 Identities=18% Similarity=0.287 Sum_probs=35.1
Q ss_pred CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcCCchhHH
Q 035556 110 GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKKHPEATY 149 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~~~A~Y 149 (261)
..-|+.|..++......+|.+.|+.||.+|-..|...|.=
T Consensus 254 ~dTe~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar~ 293 (303)
T PRK10564 254 NDTESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSARS 293 (303)
T ss_pred chHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHHH
Confidence 3567889999999999999999999999999999776653
No 55
>PRK11189 lipoprotein NlpI; Provisional
Probab=47.18 E-value=68 Score=29.35 Aligned_cols=62 Identities=21% Similarity=0.261 Sum_probs=46.5
Q ss_pred CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 110 GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+++++.|.+|+. +...++...|...+.+|.. +.++.|.+.+|.++. -.|. .++|++.|.++.
T Consensus 62 ~~a~~~~~~g~~-~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~-~~g~--~~~A~~~~~~Al 125 (296)
T PRK11189 62 ERAQLHYERGVL-YDSLGLRALARNDFSQALALRPDMADAYNYLGIYLT-QAGN--FDAAYEAFDSVL 125 (296)
T ss_pred hhHHHHHHHHHH-HHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH-HCCC--HHHHHHHHHHHH
Confidence 335668888885 4566777899998988875 446899999999999 5543 567788888886
No 56
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=46.89 E-value=76 Score=21.90 Aligned_cols=51 Identities=18% Similarity=0.218 Sum_probs=36.7
Q ss_pred HhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 123 YFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 123 ~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
++..++-+.++..+.++.. +.++.+.+.+|++++ -.|. .++|++.|.++..
T Consensus 5 ~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~-~~g~--~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 5 YLQQEDYEEALEVLERALELDPDDPELWLQRARCLF-QLGR--YEEALEDLERALE 57 (73)
T ss_pred HHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHH-Hhcc--HHHHHHHHHHHHH
Confidence 4556666888888888665 446888888999999 4443 5677777887763
No 57
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=46.72 E-value=77 Score=26.05 Aligned_cols=60 Identities=15% Similarity=0.089 Sum_probs=41.5
Q ss_pred CcchHHHHHHHHhcC-C----chHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSG-N----PEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIML 156 (261)
Q Consensus 96 ~~ka~~FL~rCleaG-N----peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l 156 (261)
.+.+...+.++++.. + +.+.+..|+.... .++.++|...+.+|.. +.+..+.+++|.++.
T Consensus 51 ~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~-~g~~~eA~~~~~~Al~~~~~~~~~~~~la~i~~ 117 (168)
T CHL00033 51 YAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTS-NGEHTKALEYYFQALERNPFLPQALNNMAVICH 117 (168)
T ss_pred HHHHHHHHHHHHhccccchhhHHHHHHHHHHHHH-cCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHH
Confidence 456778888887542 2 2366677765544 4566899999988775 445677888888887
No 58
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=46.70 E-value=27 Score=20.35 Aligned_cols=28 Identities=18% Similarity=0.163 Sum_probs=20.6
Q ss_pred hhHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 146 EATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 146 ~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
+|.|.+|+++. -.| +.++|+++|.++.+
T Consensus 1 ~a~~~~a~~~~-~~g--~~~~A~~~~~~~~~ 28 (33)
T PF13174_consen 1 DALYRLARCYY-KLG--DYDEAIEYFQRLIK 28 (33)
T ss_dssp HHHHHHHHHHH-HHC--HHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHH-Hcc--CHHHHHHHHHHHHH
Confidence 47899999999 344 26778888887753
No 59
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=46.46 E-value=1.5e+02 Score=27.20 Aligned_cols=48 Identities=15% Similarity=0.083 Sum_probs=20.1
Q ss_pred ccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 125 SLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 125 ~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
..++.+.|+..+.++... ....+...++.++. -.|. .++|+++|..+.
T Consensus 119 ~~g~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~-~~g~--~~~A~~~~~~~~ 168 (389)
T PRK11788 119 KAGLLDRAEELFLQLVDEGDFAEGALQQLLEIYQ-QEKD--WQKAIDVAERLE 168 (389)
T ss_pred HCCCHHHHHHHHHHHHcCCcchHHHHHHHHHHHH-Hhch--HHHHHHHHHHHH
Confidence 334445555555555432 12333444444443 2221 344445555443
No 60
>PRK10153 DNA-binding transcriptional activator CadC; Provisional
Probab=46.34 E-value=84 Score=31.82 Aligned_cols=66 Identities=11% Similarity=0.062 Sum_probs=47.9
Q ss_pred cCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcC-CchhHHHHHHHHHhccCcchHHHHHHHHHHhhccc
Q 035556 109 SGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKK-HPEATYVYTIIMLLCCGSQFKKQGFELLSSLKSTY 178 (261)
Q Consensus 109 aGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G-~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~t~ 178 (261)
..+|.++...|++.+. .++.++|...|.+|.... +..|.+.+|.++. -.|. .++|++.|.++..-.
T Consensus 417 ~~~~~~~~ala~~~~~-~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~-~~G~--~~eA~~~~~~A~~L~ 483 (517)
T PRK10153 417 NVLPRIYEILAVQALV-KGKTDEAYQAINKAIDLEMSWLNYVLLGKVYE-LKGD--NRLAADAYSTAFNLR 483 (517)
T ss_pred cCChHHHHHHHHHHHh-cCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHH-HcCC--HHHHHHHHHHHHhcC
Confidence 3456778888888775 467799999999988754 4555666677666 3443 678999999998544
No 61
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=45.42 E-value=93 Score=28.59 Aligned_cols=65 Identities=15% Similarity=0.195 Sum_probs=49.4
Q ss_pred hcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CC---chhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 108 KSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KH---PEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 108 eaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~---~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
..++..+.|..++-+++..++-.+++..+...... .+ +.|.|-+|.+++ -.|. .+.|+..|..+.
T Consensus 138 ~~~~e~~~Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~-~~g~--~~~A~~~f~~vv 207 (263)
T PRK10803 138 QSGDANTDYNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNY-NKGK--KDDAAYYFASVV 207 (263)
T ss_pred CCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 34566888999888877778878888888886653 22 469999999999 4443 567888888886
No 62
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=44.13 E-value=80 Score=33.09 Aligned_cols=75 Identities=16% Similarity=0.256 Sum_probs=45.6
Q ss_pred chHHHHHHHHhcCCchHHHHHHHHHH-hccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHh
Q 035556 98 HASLFLMRCKKSGNPEALYRQGMHDY-FSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSL 174 (261)
Q Consensus 98 ka~~FL~rCleaGNpeA~Y~~Gm~~~-~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~ 174 (261)
-++-+|.++++-+......+-.+..+ ...+..++|++++.+|.. +-++...|-.|.|++ +.+. ..+|+..|+.+
T Consensus 507 ~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~-~~~~--~~eal~~LEeL 583 (638)
T KOG1126|consen 507 FAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILF-SLGR--YVEALQELEEL 583 (638)
T ss_pred HHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHH-hhcc--hHHHHHHHHHH
Confidence 34455666666433333333333333 444455788888888765 346777888888888 6554 45677777777
Q ss_pred h
Q 035556 175 K 175 (261)
Q Consensus 175 ~ 175 (261)
+
T Consensus 584 k 584 (638)
T KOG1126|consen 584 K 584 (638)
T ss_pred H
Confidence 6
No 63
>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=43.42 E-value=1e+02 Score=26.40 Aligned_cols=15 Identities=7% Similarity=0.111 Sum_probs=6.9
Q ss_pred cCCcHHHHHHHHHHh
Q 035556 126 LGLTNSGFRLLKRAA 140 (261)
Q Consensus 126 ~~~~~~Gl~lL~~AA 140 (261)
.++-++|+..+.++.
T Consensus 46 ~~~~~~A~~~~~~~~ 60 (235)
T TIGR03302 46 SGDYTEAIKYFEALE 60 (235)
T ss_pred cCCHHHHHHHHHHHH
Confidence 333345555554443
No 64
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=42.06 E-value=1.6e+02 Score=31.03 Aligned_cols=75 Identities=5% Similarity=-0.012 Sum_probs=50.9
Q ss_pred cchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 97 RHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 97 ~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
+.+.....+.++. .|+++++.+|+.+. ..+..++|..+..++... +++.|.+.+|.++. -.|. .+.|...|+
T Consensus 137 eeA~~~~~~~l~~~p~~~~~~~~~a~~l~-~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~-~~G~--~~~A~~~~~ 212 (694)
T PRK15179 137 EAGRAEIELYFSGGSSSAREILLEAKSWD-EIGQSEQADACFERLSRQHPEFENGYVGWAQSLT-RRGA--LWRARDVLQ 212 (694)
T ss_pred HHHHHHHHHHhhcCCCCHHHHHHHHHHHH-HhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHH-HcCC--HHHHHHHHH
Confidence 3445555555543 46777888887654 334448888888888853 35788899999888 4443 456777788
Q ss_pred Hhh
Q 035556 173 SLK 175 (261)
Q Consensus 173 ~~~ 175 (261)
++.
T Consensus 213 ~a~ 215 (694)
T PRK15179 213 AGL 215 (694)
T ss_pred HHH
Confidence 886
No 65
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=42.00 E-value=1.3e+02 Score=24.74 Aligned_cols=57 Identities=19% Similarity=0.180 Sum_probs=39.5
Q ss_pred HHHHHHHHhccCCcHHHHHHHHHHhhc--CC---chhHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 116 YRQGMHDYFSLGLTNSGFRLLKRAADK--KH---PEATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 116 Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~---~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
+..|+ .+...++.++++.++.+|... .+ +.+.+++|+++. -.|. .++|++.|.++..
T Consensus 39 ~~~g~-~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~-~~g~--~~eA~~~~~~Al~ 100 (168)
T CHL00033 39 YRDGM-SAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHT-SNGE--HTKALEYYFQALE 100 (168)
T ss_pred HHHHH-HHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHH-HcCC--HHHHHHHHHHHHH
Confidence 44444 344556778999999999643 22 348999999999 5543 5678888888763
No 66
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=41.84 E-value=1.2e+02 Score=26.83 Aligned_cols=77 Identities=14% Similarity=0.052 Sum_probs=41.4
Q ss_pred CcchHHHHHHHHhcCCchHHHHHHHHHHhcc-CCcHHHHHHH---HHHhhcCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSGNPEALYRQGMHDYFSL-GLTNSGFRLL---KRAADKKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~-~~~~~Gl~lL---~~AA~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+..++.++++..+-+.-.+.++..+... ++..++...| .++. ..++.-...+|..++ -.|. .++|+++|
T Consensus 162 ~~~A~~~~~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~-~lg~--~~~Al~~~ 237 (280)
T PF13429_consen 162 PDKALRDYRKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYL-QLGR--YEEALEYL 237 (280)
T ss_dssp HHHHHHHHHHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHH-HHT---HHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhc-cccc--cccccccc
Confidence 4567777777777554445555555555433 3334433333 3333 335556666777776 3332 56777777
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
.++..
T Consensus 238 ~~~~~ 242 (280)
T PF13429_consen 238 EKALK 242 (280)
T ss_dssp HHHHH
T ss_pred ccccc
Confidence 77663
No 67
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=41.15 E-value=1.1e+02 Score=33.79 Aligned_cols=76 Identities=18% Similarity=0.234 Sum_probs=55.8
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
.+.+...+.++++. .|+.+.|.+|.. +...++.++|...+.++.. +.++.+.|.+|+++. ..+. .++|+++|
T Consensus 477 ~~eA~~~~~~Al~~~P~~~~~~~~LA~~-~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~-~~~~--~~~Al~~l 552 (1157)
T PRK11447 477 WAQAAELQRQRLALDPGSVWLTYRLAQD-LRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLS-GSDR--DRAALAHL 552 (1157)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH-hCCC--HHHHHHHH
Confidence 45677788888763 355677777774 5667788999999999865 567889999998766 4443 56788888
Q ss_pred HHhh
Q 035556 172 SSLK 175 (261)
Q Consensus 172 ~~~~ 175 (261)
.++.
T Consensus 553 ~~l~ 556 (1157)
T PRK11447 553 NTLP 556 (1157)
T ss_pred HhCC
Confidence 7764
No 68
>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional
Probab=38.73 E-value=2.6e+02 Score=24.14 Aligned_cols=78 Identities=13% Similarity=0.048 Sum_probs=50.0
Q ss_pred CcchHHHHHHHHhcCCchHHHHHHHHHHhccC-CcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSGNPEALYRQGMHDYFSLG-LTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 96 ~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~~-~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
.+.+..++.-...-.+-.+-|..|+=...+.. +-++|++.-..|+. +.++.+.|+.|..++ ..|. .+.|.+-|.
T Consensus 51 l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L-~lG~--~~~A~~aF~ 127 (157)
T PRK15363 51 FAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL-ACDN--VCYAIKALK 127 (157)
T ss_pred HHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH-HcCC--HHHHHHHHH
Confidence 34566666555444444444444444444433 34788888888765 457999999999999 6664 455666677
Q ss_pred Hhhc
Q 035556 173 SLKS 176 (261)
Q Consensus 173 ~~~~ 176 (261)
.+.+
T Consensus 128 ~Ai~ 131 (157)
T PRK15363 128 AVVR 131 (157)
T ss_pred HHHH
Confidence 7764
No 69
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=38.73 E-value=2.1e+02 Score=22.99 Aligned_cols=75 Identities=16% Similarity=0.121 Sum_probs=45.9
Q ss_pred CcchHHHHHHHHhcC-Cc----hHHHHHHHHHHhccCCcHHHHHHHHHHhhc-CCchhHHHHHHHHHhccCcchHHHHHH
Q 035556 96 DRHASLFLMRCKKSG-NP----EALYRQGMHDYFSLGLTNSGFRLLKRAADK-KHPEATYVYTIIMLLCCGSQFKKQGFE 169 (261)
Q Consensus 96 ~~ka~~FL~rCleaG-Np----eA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~-G~~~A~Y~lgmL~l~~~G~e~~~~a~~ 169 (261)
...+..-|...++.. ++ .|.+.++-. +...++-++|+..|...... ..+.+....|.|++ -.|. .++|..
T Consensus 64 ~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~-~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~-~~g~--~~~A~~ 139 (145)
T PF09976_consen 64 YDEAKAALEKALANAPDPELKPLARLRLARI-LLQQGQYDEALATLQQIPDEAFKALAAELLGDIYL-AQGD--YDEARA 139 (145)
T ss_pred HHHHHHHHHHHHhhCCCHHHHHHHHHHHHHH-HHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHH-HCCC--HHHHHH
Confidence 456667777777755 22 244444432 25666668888888764332 24667778888888 5553 456666
Q ss_pred HHHHh
Q 035556 170 LLSSL 174 (261)
Q Consensus 170 ~f~~~ 174 (261)
.|..+
T Consensus 140 ~y~~A 144 (145)
T PF09976_consen 140 AYQKA 144 (145)
T ss_pred HHHHh
Confidence 66654
No 70
>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=37.50 E-value=98 Score=27.59 Aligned_cols=77 Identities=8% Similarity=0.034 Sum_probs=43.2
Q ss_pred CCchHHHHHHHHHH--hccCCc-------HHHHHHHHHHh--hcCCchhHHHHHHHHHhccCc---------chHHHHHH
Q 035556 110 GNPEALYRQGMHDY--FSLGLT-------NSGFRLLKRAA--DKKHPEATYVYTIIMLLCCGS---------QFKKQGFE 169 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~--~~~~~~-------~~Gl~lL~~AA--~~G~~~A~Y~lgmL~l~~~G~---------e~~~~a~~ 169 (261)
-++++.+.=|.-++ -+-++. +++..-|.+|- ++....|.|.+|.-+. ..+. +..++|.+
T Consensus 23 ~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~t-s~A~l~~d~~~A~~~F~kA~~ 101 (186)
T PF06552_consen 23 LDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYT-SLAFLTPDTAEAEEYFEKATE 101 (186)
T ss_dssp T-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHH-HHHHH---HHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHH-HHHhhcCChHHHHHHHHHHHH
Confidence 34566677666555 223332 44555555543 3556899999999998 4332 23677777
Q ss_pred HHHHhhccc-chHHHHHHH
Q 035556 170 LLSSLKSTY-GIRECRTKI 187 (261)
Q Consensus 170 ~f~~~~~t~-~~~ecr~ki 187 (261)
+|.++.+.. .++.+|+-+
T Consensus 102 ~FqkAv~~~P~ne~Y~ksL 120 (186)
T PF06552_consen 102 YFQKAVDEDPNNELYRKSL 120 (186)
T ss_dssp HHHHHHHH-TT-HHHHHHH
T ss_pred HHHHHHhcCCCcHHHHHHH
Confidence 777776544 555565433
No 71
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=36.67 E-value=1.8e+02 Score=30.10 Aligned_cols=76 Identities=9% Similarity=0.010 Sum_probs=40.7
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
.+.+...+.+.++. +++++.+..|-. +...++.++|...+.++.. +.++.+.+.++ .++ -.|. .++|++.+
T Consensus 126 ~~~Ai~~l~~Al~l~P~~~~a~~~la~~-l~~~g~~~eA~~~~~~~~~~~P~~~~a~~~~~-~l~-~~g~--~~eA~~~~ 200 (656)
T PRK15174 126 YATVADLAEQAWLAFSGNSQIFALHLRT-LVLMDKELQAISLARTQAQEVPPRGDMIATCL-SFL-NKSR--LPEDHDLA 200 (656)
T ss_pred HHHHHHHHHHHHHhCCCcHHHHHHHHHH-HHHCCChHHHHHHHHHHHHhCCCCHHHHHHHH-HHH-HcCC--HHHHHHHH
Confidence 45566677777663 444455555443 4555666777777765532 33444444433 333 2222 45666777
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
.++..
T Consensus 201 ~~~l~ 205 (656)
T PRK15174 201 RALLP 205 (656)
T ss_pred HHHHh
Confidence 76543
No 72
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=35.68 E-value=1.8e+02 Score=30.43 Aligned_cols=76 Identities=5% Similarity=-0.020 Sum_probs=55.0
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+..+++. +|+++.+.+++.. ...++.++|+.+|.++.. +.++. .+.+|.++. ..|. .++|++.|
T Consensus 65 ~~~A~~~~~~al~~~P~~~~a~~~la~~l-~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~-~~g~--~~~Al~~l 139 (765)
T PRK10049 65 WQNSLTLWQKALSLEPQNDDYQRGLILTL-ADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYK-RAGR--HWDELRAM 139 (765)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH-HCCC--HHHHHHHH
Confidence 45678888888765 4566666655544 455666999999999766 33566 888998888 5443 57788889
Q ss_pred HHhhc
Q 035556 172 SSLKS 176 (261)
Q Consensus 172 ~~~~~ 176 (261)
.++..
T Consensus 140 ~~al~ 144 (765)
T PRK10049 140 TQALP 144 (765)
T ss_pred HHHHH
Confidence 88874
No 73
>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=34.69 E-value=77 Score=18.67 Aligned_cols=27 Identities=22% Similarity=0.207 Sum_probs=20.3
Q ss_pred hhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 146 EATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 146 ~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.+.|.+|.++. -.|. .++|++.|.++.
T Consensus 2 ~~~~~lg~~y~-~~~~--~~~A~~~~~~a~ 28 (34)
T PF13181_consen 2 EAYYNLGKIYE-QLGD--YEEALEYFEKAL 28 (34)
T ss_dssp HHHHHHHHHHH-HTTS--HHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 57889999999 4443 677888888775
No 74
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=34.28 E-value=2.3e+02 Score=25.90 Aligned_cols=44 Identities=16% Similarity=0.115 Sum_probs=20.6
Q ss_pred cchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhh
Q 035556 97 RHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD 141 (261)
Q Consensus 97 ~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~ 141 (261)
+.+...+.++++.. ++++.+..|.. +...++.++|..++.++..
T Consensus 197 ~~A~~~~~~al~~~p~~~~~~~~la~~-~~~~g~~~~A~~~~~~~~~ 242 (389)
T PRK11788 197 DAARALLKKALAADPQCVRASILLGDL-ALAQGDYAAAIEALERVEE 242 (389)
T ss_pred HHHHHHHHHHHhHCcCCHHHHHHHHHH-HHHCCCHHHHHHHHHHHHH
Confidence 33445555555422 23344444322 2334444666666666654
No 75
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=33.42 E-value=95 Score=19.96 Aligned_cols=29 Identities=34% Similarity=0.403 Sum_probs=13.8
Q ss_pred hccCCcHHHHHHHHHHhh--cCCchhHHHHH
Q 035556 124 FSLGLTNSGFRLLKRAAD--KKHPEATYVYT 152 (261)
Q Consensus 124 ~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lg 152 (261)
...++.++|.+++.++.. +.++.|.+.+|
T Consensus 12 ~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La 42 (44)
T PF13428_consen 12 RRLGQPDEAERLLRRALALDPDDPEAWRALA 42 (44)
T ss_pred HHcCCHHHHHHHHHHHHHHCcCCHHHHHHhh
Confidence 334444555555555433 33445555444
No 76
>PF01851 PC_rep: Proteasome/cyclosome repeat; InterPro: IPR002015 A weakly conserved repeat module of unknown function, which occurs in two regulatory subunits of the 26S-proteasome and in one subunit of the APC-complex (cyclosome) [].; PDB: 4ADY_A.
Probab=33.25 E-value=63 Score=20.61 Aligned_cols=25 Identities=20% Similarity=0.259 Sum_probs=16.9
Q ss_pred hHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 147 ATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 147 A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
|.+.+|++++ |++.+ ++++++....
T Consensus 2 A~lgLGl~~a-Gs~~~---~~~~~L~~~l 26 (35)
T PF01851_consen 2 AILGLGLIYA-GSGNE---EVLDLLRPYL 26 (35)
T ss_dssp HHHHHHHHTT-TT--H---HHHHHHHHHH
T ss_pred cHHHHHHHHc-CCCCH---HHHHHHHHHH
Confidence 7899999999 88764 4666665544
No 77
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=32.80 E-value=1.8e+02 Score=27.75 Aligned_cols=78 Identities=12% Similarity=0.127 Sum_probs=53.5
Q ss_pred CCcchHHHHHHHHhcCCchHHHHHH---HHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHH
Q 035556 95 TDRHASLFLMRCKKSGNPEALYRQG---MHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFE 169 (261)
Q Consensus 95 ~~~ka~~FL~rCleaGNpeA~Y~~G---m~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~ 169 (261)
+.+.+..++.++.+ -+|++..... -+.+...++.++++..+.++.+ +.|+.+.+.++.+++ -.|. .+++++
T Consensus 133 ~~~~A~~~l~~A~~-~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~P~~~~al~ll~~~~~-~~gd--w~~a~~ 208 (398)
T PRK10747 133 DEARANQHLERAAE-LADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVAPRHPEVLRLAEQAYI-RTGA--WSSLLD 208 (398)
T ss_pred CHHHHHHHHHHHHh-cCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH-HHHh--HHHHHH
Confidence 45677888888877 6666643332 2355667777888888888655 457888999999998 4442 556776
Q ss_pred HHHHhhc
Q 035556 170 LLSSLKS 176 (261)
Q Consensus 170 ~f~~~~~ 176 (261)
++..+.+
T Consensus 209 ~l~~l~k 215 (398)
T PRK10747 209 ILPSMAK 215 (398)
T ss_pred HHHHHHH
Confidence 6666663
No 78
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=32.68 E-value=2.3e+02 Score=29.72 Aligned_cols=77 Identities=8% Similarity=-0.004 Sum_probs=54.3
Q ss_pred CCcchHHHHHHHHhcC--CchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHH
Q 035556 95 TDRHASLFLMRCKKSG--NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFEL 170 (261)
Q Consensus 95 ~~~ka~~FL~rCleaG--NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~ 170 (261)
....+...+.+.++.. |++ .+..|.... ..++.++|+..+.+|.. +.++.+.+.+|.++... + ..++|++.
T Consensus 98 ~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~-~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~-~--~~e~Al~~ 172 (765)
T PRK10049 98 QYDEALVKAKQLVSGAPDKAN-LLALAYVYK-RAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNN-R--LSAPALGA 172 (765)
T ss_pred CHHHHHHHHHHHHHhCCCCHH-HHHHHHHHH-HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHC-C--ChHHHHHH
Confidence 3567778888887743 344 555665444 55677999999999876 44678889999988732 2 25678888
Q ss_pred HHHhhc
Q 035556 171 LSSLKS 176 (261)
Q Consensus 171 f~~~~~ 176 (261)
+.++..
T Consensus 173 l~~~~~ 178 (765)
T PRK10049 173 IDDANL 178 (765)
T ss_pred HHhCCC
Confidence 887775
No 79
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=32.40 E-value=1.9e+02 Score=27.48 Aligned_cols=66 Identities=20% Similarity=0.184 Sum_probs=45.8
Q ss_pred CCchHHHHHHHHHHhccC--CcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhhccc
Q 035556 110 GNPEALYRQGMHDYFSLG--LTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLKSTY 178 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~~~~~--~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~t~ 178 (261)
.||+..--.|-.+|++.+ +..+|-.+|++|.. +.+..|.|.||+-++ -.| +.++|+..++.+..+-
T Consensus 188 ~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral~lLA~~af-e~g--~~~~A~~~Wq~lL~~l 257 (287)
T COG4235 188 DNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRALSLLAFAAF-EQG--DYAEAAAAWQMLLDLL 257 (287)
T ss_pred CCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHHHHHHHHHH-Hcc--cHHHHHHHHHHHHhcC
Confidence 355554444445555554 44899999999876 456889999999999 333 2678888888887433
No 80
>PF03540 TFIID_30kDa: Transcription initiation factor TFIID 23-30kDa subunit; InterPro: IPR003923 Transcription initiation factor TFIID is a multimeric protein complex that plays a central role in mediating promoter responses to various activators and repressors. The complex includes TATA binding protein (TBP) and various TBP-associated factors (TAFS). TFIID a bona fide RNA polymerase II-specific TATA-binding protein-associated factor (TAF) and is essential for viability []. TFIID acts to nucleate the transcription complex, recruiting the rest of the factors through a direct interaction with TFIIB. The TBP subunit of TFIID is sufficient for TATA-element binding and TFIIB interaction, and can support basal transcription. The protein belongs to the TAF2H family.; GO: 0006352 transcription initiation, DNA-dependent, 0005634 nucleus
Probab=32.26 E-value=83 Score=22.32 Aligned_cols=19 Identities=5% Similarity=0.195 Sum_probs=16.5
Q ss_pred CCCChHHHHHHHHHhcccC
Q 035556 38 ESLPHALLTEVMAQVASTS 56 (261)
Q Consensus 38 ~~LPdDLlv~I~arVa~~S 56 (261)
|.+||.+...++.+.|-++
T Consensus 1 P~IPD~v~~~yL~~~G~~~ 19 (51)
T PF03540_consen 1 PTIPDEVTDYYLERSGFQT 19 (51)
T ss_pred CCCCHHHHHHHHHHCCCCC
Confidence 5699999999999999654
No 81
>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional
Probab=31.97 E-value=1.4e+02 Score=31.41 Aligned_cols=77 Identities=6% Similarity=-0.169 Sum_probs=51.7
Q ss_pred CcchHHHHHHHHhcCCchHHHHHHHHHH-hccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSGNPEALYRQGMHDY-FSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 96 ~~ka~~FL~rCleaGNpeA~Y~~Gm~~~-~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
.+.++..+.+|++-..-.+..+..+... ...+..++|+...+++.. +-++.|++.+|+.+. -.|. .++|++.|+
T Consensus 102 ~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~l~-~~g~--~~~A~~~y~ 178 (694)
T PRK15179 102 SDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKSWD-EIGQ--SEQADACFE 178 (694)
T ss_pred cHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH-Hhcc--hHHHHHHHH
Confidence 4567788888887443333333333222 455555888888888654 447999999999998 4443 567888888
Q ss_pred Hhh
Q 035556 173 SLK 175 (261)
Q Consensus 173 ~~~ 175 (261)
++.
T Consensus 179 ~~~ 181 (694)
T PRK15179 179 RLS 181 (694)
T ss_pred HHH
Confidence 886
No 82
>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models. The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding
Probab=31.92 E-value=71 Score=18.57 Aligned_cols=25 Identities=24% Similarity=0.349 Sum_probs=16.3
Q ss_pred chhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 145 PEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 145 ~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
+.|.+++|.+++ -.|. .++|..+++
T Consensus 1 ~~a~~~la~~~~-~~G~--~~eA~~~l~ 25 (26)
T PF07721_consen 1 PRARLALARALL-AQGD--PDEAERLLR 25 (26)
T ss_pred CHHHHHHHHHHH-HcCC--HHHHHHHHh
Confidence 357888888888 5554 455655554
No 83
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=31.61 E-value=2.4e+02 Score=21.60 Aligned_cols=65 Identities=14% Similarity=0.148 Sum_probs=0.0
Q ss_pred CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCcchHHHHHHHHHHhhccc-chHHHHHHH
Q 035556 110 GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLKSTY-GIRECRTKI 187 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~t~-~~~ecr~ki 187 (261)
+|+++.|.++. .+...++.++|++.|-......... .+..-.+..+++|..+-.+. .+.+.|+|+
T Consensus 20 ~D~~ar~~lA~-~~~~~g~~e~Al~~Ll~~v~~dr~~------------~~~~ar~~ll~~f~~lg~~~plv~~~RRkL 85 (90)
T PF14561_consen 20 DDLDARYALAD-ALLAAGDYEEALDQLLELVRRDRDY------------EDDAARKRLLDIFELLGPGDPLVSEYRRKL 85 (90)
T ss_dssp T-HHHHHHHHH-HHHHTT-HHHHHHHHHHHHCC-TTC------------CCCHHHHHHHHHHHHH-TT-HHHHHHHHHH
T ss_pred CCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCccc------------cccHHHHHHHHHHHHcCCCChHHHHHHHHH
No 84
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=31.43 E-value=1.3e+02 Score=28.60 Aligned_cols=51 Identities=12% Similarity=-0.031 Sum_probs=39.1
Q ss_pred HHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 122 DYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 122 ~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.+|..++-..|++++.+|.. +.++.|.+.+|.+++ -.|. .++|+..+.++.
T Consensus 11 ~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~-~~g~--~~eAl~~~~~Al 63 (356)
T PLN03088 11 EAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANI-KLGN--FTEAVADANKAI 63 (356)
T ss_pred HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 45667788999999999876 446788999999998 4443 567778788775
No 85
>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=30.54 E-value=2.8e+02 Score=27.94 Aligned_cols=76 Identities=12% Similarity=0.063 Sum_probs=53.2
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+.++++. +++++.+..|...+ ..++.++++..+.+|.. +.++.+.|.+|.+++ -.|. .++|++.|
T Consensus 347 ~~eA~~~~~kal~l~P~~~~~~~~la~~~~-~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~-~~g~--~~~A~~~~ 422 (615)
T TIGR00990 347 HLEALADLSKSIELDPRVTQSYIKRASMNL-ELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHF-IKGE--FAQAGKDY 422 (615)
T ss_pred HHHHHHHHHHHHHcCCCcHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HcCC--HHHHHHHH
Confidence 45677788888763 23445566666544 45666889988888755 446889999999988 4443 56788888
Q ss_pred HHhh
Q 035556 172 SSLK 175 (261)
Q Consensus 172 ~~~~ 175 (261)
.++.
T Consensus 423 ~kal 426 (615)
T TIGR00990 423 QKSI 426 (615)
T ss_pred HHHH
Confidence 8776
No 86
>PRK14574 hmsH outer membrane protein; Provisional
Probab=30.01 E-value=2.2e+02 Score=30.71 Aligned_cols=77 Identities=13% Similarity=0.059 Sum_probs=33.4
Q ss_pred cchHHHHHHHHhcCCchHHHHHHHHHH-hccCCcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 97 RHASLFLMRCKKSGNPEALYRQGMHDY-FSLGLTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 97 ~ka~~FL~rCleaGNpeA~Y~~Gm~~~-~~~~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.++...+.++++...-..-.+.|+... ...+..++|+..+.++... .+.+.+.++++++ -.+.+...++++.+.++.
T Consensus 119 d~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~-dp~~~~~l~layL-~~~~~~~~~AL~~~ekll 196 (822)
T PRK14574 119 DQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAER-DPTVQNYMTLSYL-NRATDRNYDALQASSEAV 196 (822)
T ss_pred HHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhccc-CcchHHHHHHHHH-HHhcchHHHHHHHHHHHH
Confidence 355556666655432222222233222 2223335555555555543 2333433555555 222222223555566555
No 87
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=29.75 E-value=2.7e+02 Score=30.73 Aligned_cols=76 Identities=14% Similarity=0.048 Sum_probs=48.7
Q ss_pred CcchHHHHHHHHhcC-CchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCchhHHHHHHHHHhccCcchHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSG-NPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPEATYVYTIIMLLCCGSQFKKQGFELLS 172 (261)
Q Consensus 96 ~~ka~~FL~rCleaG-NpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~ 172 (261)
...+...+.++++.. ++++.+..|. .+...++.++|...+.+|.. +.++.+.+++|+++. -.|. .++|++.|.
T Consensus 592 ~~eAl~~~~~AL~l~P~~~a~~~LA~-~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~-~~G~--~eeAi~~l~ 667 (987)
T PRK09782 592 PELALNDLTRSLNIAPSANAYVARAT-IYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALW-DSGD--IAQSREMLE 667 (987)
T ss_pred HHHHHHHHHHHHHhCCCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCC--HHHHHHHHH
Confidence 345566666666532 2344555553 34556666888888888665 456788888888888 4443 567777777
Q ss_pred Hhh
Q 035556 173 SLK 175 (261)
Q Consensus 173 ~~~ 175 (261)
++.
T Consensus 668 ~AL 670 (987)
T PRK09782 668 RAH 670 (987)
T ss_pred HHH
Confidence 775
No 88
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=28.39 E-value=3.4e+02 Score=22.34 Aligned_cols=60 Identities=20% Similarity=0.144 Sum_probs=41.6
Q ss_pred CcchHHHHHHHHhcCC-----chHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHH
Q 035556 96 DRHASLFLMRCKKSGN-----PEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIML 156 (261)
Q Consensus 96 ~~ka~~FL~rCleaGN-----peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l 156 (261)
.+.+...+.+.++... +.+.+..|... ...++.++|+..+.+|... .+..+.+.+|.++.
T Consensus 51 ~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~-~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~ 117 (172)
T PRK02603 51 YAEALENYEEALKLEEDPNDRSYILYNMGIIY-ASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH 117 (172)
T ss_pred HHHHHHHHHHHHHHhhccchHHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence 4466677777775321 34666666654 4456668999999998764 46778888999888
No 89
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=28.29 E-value=1e+02 Score=19.03 Aligned_cols=26 Identities=15% Similarity=0.011 Sum_probs=19.7
Q ss_pred hHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 147 ATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 147 A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
|..++|.++. ..|. .++|+++|.++.
T Consensus 1 al~~Lg~~~~-~~g~--~~~Ai~~y~~aL 26 (36)
T PF13176_consen 1 ALNNLGRIYR-QQGD--YEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHH-HCT---HHHHHHHHHHHH
T ss_pred CHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 5678899998 5554 678999999854
No 90
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=28.11 E-value=74 Score=27.84 Aligned_cols=39 Identities=23% Similarity=0.379 Sum_probs=27.7
Q ss_pred chHHHHHHHHhcCCchHH-----HHHHHHHHhccCCcHHHHHHH
Q 035556 98 HASLFLMRCKKSGNPEAL-----YRQGMHDYFSLGLTNSGFRLL 136 (261)
Q Consensus 98 ka~~FL~rCleaGNpeA~-----Y~~Gm~~~~~~~~~~~Gl~lL 136 (261)
+...=++.++++|||+|+ |..|+++++..+|...+..-|
T Consensus 94 rkl~~ik~aa~~~d~~Al~iL~FYy~g~~Q~~~LD~NTltl~~l 137 (165)
T PF11286_consen 94 RKLHKIKAAAEQGDPDALKILRFYYQGLRQVYQLDDNTLTLSDL 137 (165)
T ss_pred HHHHHHHHHHHcCCHHHHHHHHHHHHhHHHHHHhcCCcccHHHH
Confidence 344557788888999987 677888888888764443333
No 91
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=28.03 E-value=2e+02 Score=23.38 Aligned_cols=64 Identities=23% Similarity=0.234 Sum_probs=44.3
Q ss_pred chHHHHHHHHHHhccCCcHHHHHHHHHHhhcCCchhHHHHHHHHHhccCc---chHHHHHHHHHHhhcc
Q 035556 112 PEALYRQGMHDYFSLGLTNSGFRLLKRAADKKHPEATYVYTIIMLLCCGS---QFKKQGFELLSSLKST 177 (261)
Q Consensus 112 peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~---e~~~~a~~~f~~~~~t 177 (261)
|++.|-.+... -..|+.++|..+..+|...|-..+.-.-+.|.+ ++.. ...++++.+|+.+...
T Consensus 1 ~~~~~~~A~a~-d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~l-astlr~LG~~deA~~~L~~~~~~ 67 (120)
T PF12688_consen 1 PRALYELAWAH-DSLGREEEAIPLYRRALAAGLSGADRRRALIQL-ASTLRNLGRYDEALALLEEALEE 67 (120)
T ss_pred CchHHHHHHHH-HhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHH-HHHHHHcCCHHHHHHHHHHHHHH
Confidence 45566665543 445666899999999999887666666666666 4332 2378899999888754
No 92
>PHA02751 hypothetical protein; Provisional
Probab=27.30 E-value=23 Score=31.55 Aligned_cols=84 Identities=19% Similarity=0.222 Sum_probs=56.8
Q ss_pred hHHHHHhcHHHHHhhcCHHHHHhcCccccccccCCCCcchHHHHHHHHhcCCchHHHHHHHHHH-hccCCcHHHHHHHHH
Q 035556 60 LSRLKLSCKYFLQAADDDFVFEHASLDKFYVVWPMTDRHASLFLMRCKKSGNPEALYRQGMHDY-FSLGLTNSGFRLLKR 138 (261)
Q Consensus 60 l~~l~ltcK~f~~l~~~~~Vl~~~sl~~~~l~w~~~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~-~~~~~~~~Gl~lL~~ 138 (261)
...+-++|--|.+++.+.-+++++++ -.++.|..|+.-.++.+-.+. +-.=|+.+ .+..-..+=.+.|++
T Consensus 126 vvglgR~CvIfGalVrddG~~khV~i--------i~eeeYleWlRam~ek~~adS-weVim~~Lqi~ee~ln~l~eeLak 196 (233)
T PHA02751 126 VVGLGRLCVIFGALVRDDGHAKHVGI--------ITEEEYLEWLRAMAEKNLADS-WEVIMIPLQIHEELLNELEEELAK 196 (233)
T ss_pred ccccceEEEEEeeEEeecCeeeeccc--------cCHHHHHHHHHHHHhcCcccc-hhheeeeHHHHHHHHHHHHHHHHH
Confidence 33456678888888889888888888 447788999998888544444 22222222 333333556667777
Q ss_pred HhhcCCchhHHHHHHHHH
Q 035556 139 AADKKHPEATYVYTIIML 156 (261)
Q Consensus 139 AA~~G~~~A~Y~lgmL~l 156 (261)
-|+. .+|-+|++.+
T Consensus 197 ~adk----Sayelavmvi 210 (233)
T PHA02751 197 CADK----SAYELAVMVI 210 (233)
T ss_pred Hhhh----hhHHHHHHHH
Confidence 7765 4799999888
No 93
>PF04842 DUF639: Plant protein of unknown function (DUF639); InterPro: IPR006927 The sequences in this family are plant proteins of unknown function.
Probab=27.13 E-value=1.1e+02 Score=32.31 Aligned_cols=80 Identities=15% Similarity=0.115 Sum_probs=44.3
Q ss_pred HHHHhcCCchHHHHHHHHHHhccCCc-HHHHHHHHHHhhcCCchhHHHHHHHHHhccCcchHHHHHHHHHHhhc--ccch
Q 035556 104 MRCKKSGNPEALYRQGMHDYFSLGLT-NSGFRLLKRAADKKHPEATYVYTIIMLLCCGSQFKKQGFELLSSLKS--TYGI 180 (261)
Q Consensus 104 ~rCleaGNpeA~Y~~Gm~~~~~~~~~-~~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~--t~~~ 180 (261)
.-.++++|.--+=+.++.+-..++-. ..++.++..|+.---..-.|.++++.++ .|.+-.. ..+.
T Consensus 590 E~~iQ~~NI~LLKiRsllls~~PqaT~~Va~~Ll~~A~~LavvP~kyil~~v~l~------------~FTre~~~Rr~s~ 657 (683)
T PF04842_consen 590 EEYIQAANIVLLKIRSLLLSKFPQATNKVALALLGLAAVLAVVPFKYILLFVFLE------------VFTRESPFRRESS 657 (683)
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH------------HHhccCCCchhhH
Confidence 34455666666666666555555544 3455555555544444556666666652 2333332 3367
Q ss_pred HHHHHHHHhhhhhhheeecce
Q 035556 181 RECRTKIRAGVINSLWIRNIT 201 (261)
Q Consensus 181 ~ecr~ki~~~~i~~mW~~~~~ 201 (261)
++..||+|+ |+.+.|
T Consensus 658 er~~RRlrE------WW~sIP 672 (683)
T PF04842_consen 658 ERFNRRLRE------WWDSIP 672 (683)
T ss_pred HHHHHHHHH------HHhhCC
Confidence 778788887 555553
No 94
>KOG3926 consensus F-box proteins [Amino acid transport and metabolism]
Probab=26.16 E-value=83 Score=30.04 Aligned_cols=53 Identities=13% Similarity=0.309 Sum_probs=42.1
Q ss_pred CCCCCCCChHHHHHHHHHhcccChhhhHHHHHhcHHHHHhhcCHHHHHhcCcccc
Q 035556 34 GTSIESLPHALLTEVMAQVASTSLVDLSRLKLSCKYFLQAADDDFVFEHASLDKF 88 (261)
Q Consensus 34 ~~~~~~LPdDLlv~I~arVa~~S~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl~~~ 88 (261)
...|-.||-.++.+|+.|+++ =.||.++--+-.....++.++.+.+.+.-..|
T Consensus 199 ~ltl~dLP~e~vl~Il~rlsD--h~dL~s~aqa~etl~~l~~e~~iWkkLcqfHF 251 (332)
T KOG3926|consen 199 GLTLHDLPLECVLNILLRLSD--HRDLESLAQAWETLAKLSEERRIWKKLCQFHF 251 (332)
T ss_pred CCCcccchHHHHHHHHHHccC--cchHHHHHHhhHHHHHHHHHHHHHHHHHHHHh
Confidence 445778999999999999997 56788888888888888888877776665443
No 95
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=25.75 E-value=37 Score=25.03 Aligned_cols=25 Identities=20% Similarity=0.565 Sum_probs=15.6
Q ss_pred CCCCCCCccccCCCCCcccccc-ccc-cccccc
Q 035556 211 ETCDCLRTRMRGWDDGLDKLIG-SCE-SCLCVT 241 (261)
Q Consensus 211 ~~C~~~~~~~~gw~~~~D~~~~-fC~-~C~~~h 241 (261)
++|+ ....|.+ ++.+. ||+ +|+.-.
T Consensus 10 P~C~----k~~~w~~--~~~~rPFCS~RCk~ID 36 (62)
T PRK00418 10 PTCG----KPVEWGE--ISPFRPFCSKRCQLID 36 (62)
T ss_pred CCCC----CcccccC--CCCcCCcccHHHHhhh
Confidence 4566 5566754 33454 999 997543
No 96
>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=24.46 E-value=3.1e+02 Score=24.80 Aligned_cols=15 Identities=20% Similarity=0.368 Sum_probs=7.3
Q ss_pred CCcHHHHHHHHHHhh
Q 035556 127 GLTNSGFRLLKRAAD 141 (261)
Q Consensus 127 ~~~~~Gl~lL~~AA~ 141 (261)
++.++|..++.++..
T Consensus 162 g~~~eA~~~l~~~l~ 176 (355)
T cd05804 162 GRFKEGIAFMESWRD 176 (355)
T ss_pred CCHHHHHHHHHhhhh
Confidence 333555555555444
No 97
>COG3483 TDO2 Tryptophan 2,3-dioxygenase (vermilion) [Amino acid transport and metabolism]
Probab=23.80 E-value=1.9e+02 Score=26.78 Aligned_cols=94 Identities=16% Similarity=0.061 Sum_probs=64.1
Q ss_pred hhhhHHHHHhcHHHHHhhcCHHHHHhcCccccc-cc--cCCCCcchHHHHHHHHhcCCchHHHHHHHHHHhcc---CCcH
Q 035556 57 LVDLSRLKLSCKYFLQAADDDFVFEHASLDKFY-VV--WPMTDRHASLFLMRCKKSGNPEALYRQGMHDYFSL---GLTN 130 (261)
Q Consensus 57 ~~Dl~~l~ltcK~f~~l~~~~~Vl~~~sl~~~~-l~--w~~~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~~~~---~~~~ 130 (261)
+.-|..+.++++-|-.+...=+|+++.-+..+- +. .++ .+.+.+.-+|.++ |++|.....-. ..++
T Consensus 62 ~pa~kmL~Rv~ri~eql~~aw~Vl~TMTp~dyl~fR~~lgq-sSGFQS~qyR~iE-------fllGnkn~all~pH~hR~ 133 (262)
T COG3483 62 PPALKMLARVSRIFEQLNQAWDVLATMTPADYLDFRDALGQ-SSGFQSYQYREIE-------FLLGNKNAALLKPHKHRA 133 (262)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHhcc-cccchHHHHHHHH-------HHHcCcchhhhCccccCH
Confidence 344566777778899999999999998886652 33 333 4457778888877 66666555322 3346
Q ss_pred HHHHHHHHHhhcCCchhHHHHHHHHHhccCc
Q 035556 131 SGFRLLKRAADKKHPEATYVYTIIMLLCCGS 161 (261)
Q Consensus 131 ~Gl~lL~~AA~~G~~~A~Y~lgmL~l~~~G~ 161 (261)
+....|+.|-.. ...|..++-++.-.|.
T Consensus 134 e~~~~L~aal~~---pslydeairllar~g~ 161 (262)
T COG3483 134 ELLARLKAALET---PSLYDEAIRLLARQGL 161 (262)
T ss_pred HHHHHHHHHhcC---CccHHHHHHHHHhcCC
Confidence 777777777654 4688999988844554
No 98
>PRK10747 putative protoheme IX biogenesis protein; Provisional
Probab=23.55 E-value=2.7e+02 Score=26.62 Aligned_cols=77 Identities=16% Similarity=0.094 Sum_probs=50.7
Q ss_pred cchHHHHHHHHhc-CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcCCchh-HHH--H-HHHHHhccCcchHHHHHHHH
Q 035556 97 RHASLFLMRCKKS-GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKKHPEA-TYV--Y-TIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 97 ~ka~~FL~rClea-GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~~~A-~Y~--l-gmL~l~~~G~e~~~~a~~~f 171 (261)
..++..+.+..+. .+|...|+.+-+.....++.+.+.++|.+|+... +.+ .+. + +.+++ -.|. .++|++.+
T Consensus 101 ~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~-~~~~~~~~l~~a~l~l-~~g~--~~~Al~~l 176 (398)
T PRK10747 101 QQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELA-DNDQLPVEITRVRIQL-ARNE--NHAARHGV 176 (398)
T ss_pred HHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHH-HCCC--HHHHHHHH
Confidence 3666667666554 3566777776666688888899999999988753 332 222 3 56666 3343 56788888
Q ss_pred HHhhcc
Q 035556 172 SSLKST 177 (261)
Q Consensus 172 ~~~~~t 177 (261)
.++.+.
T Consensus 177 ~~~~~~ 182 (398)
T PRK10747 177 DKLLEV 182 (398)
T ss_pred HHHHhc
Confidence 877643
No 99
>PRK14574 hmsH outer membrane protein; Provisional
Probab=23.43 E-value=3e+02 Score=29.72 Aligned_cols=82 Identities=11% Similarity=0.004 Sum_probs=56.8
Q ss_pred cCCCCcchHHHHHHHHhcCCchHHHHHHHHHH-hccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHH
Q 035556 92 WPMTDRHASLFLMRCKKSGNPEALYRQGMHDY-FSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGF 168 (261)
Q Consensus 92 w~~~~~ka~~FL~rCleaGNpeA~Y~~Gm~~~-~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~ 168 (261)
|......+...+.+|++..|..+.-++++-.+ ...++-..|++++.++...- ++.+.+.+++++++ . ...++|+
T Consensus 80 ~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~-~--~q~~eAl 156 (822)
T PRK14574 80 WAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQAD-A--GRGGVVL 156 (822)
T ss_pred HcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhh-c--CCHHHHH
Confidence 54556788899999997667767666655334 44577789999999987754 45566655555552 2 2367888
Q ss_pred HHHHHhhc
Q 035556 169 ELLSSLKS 176 (261)
Q Consensus 169 ~~f~~~~~ 176 (261)
+.+.++..
T Consensus 157 ~~l~~l~~ 164 (822)
T PRK14574 157 KQATELAE 164 (822)
T ss_pred HHHHHhcc
Confidence 88888873
No 100
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=23.06 E-value=1.8e+02 Score=25.74 Aligned_cols=50 Identities=14% Similarity=0.144 Sum_probs=23.7
Q ss_pred HhccCCcHHHHHHHHHHhhcC----CchhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 123 YFSLGLTNSGFRLLKRAADKK----HPEATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 123 ~~~~~~~~~Gl~lL~~AA~~G----~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
+...++.+.+..+|..+.... ++...+.+|.++. -.|. .++|++.|.++.
T Consensus 120 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~-~~G~--~~~A~~~~~~al 173 (280)
T PF13429_consen 120 YYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYE-QLGD--PDKALRDYRKAL 173 (280)
T ss_dssp HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHH-HCCH--HHHHHHHHHHHH
T ss_pred HHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHH-HcCC--HHHHHHHHHHHH
Confidence 344455556666666543221 2334445555555 3332 455666666655
No 101
>TIGR00540 hemY_coli hemY protein. This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.
Probab=22.86 E-value=4.2e+02 Score=25.29 Aligned_cols=80 Identities=9% Similarity=0.064 Sum_probs=0.0
Q ss_pred CCCcchHHHHHHHHh-cCCch-HHHHHHHHHHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHH
Q 035556 94 MTDRHASLFLMRCKK-SGNPE-ALYRQGMHDYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFE 169 (261)
Q Consensus 94 ~~~~ka~~FL~rCle-aGNpe-A~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~ 169 (261)
.+.+.+..++.+..+ .+++. +.-+.-.+.....++.++++..+.+..... |+.+.+.++.+++ -.|. .+.+.+
T Consensus 132 g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~P~~~~~l~ll~~~~~-~~~d--~~~a~~ 208 (409)
T TIGR00540 132 GDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMAPRHKEVLKLAEEAYI-RSGA--WQALDD 208 (409)
T ss_pred CCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-HHhh--HHHHHH
Q ss_pred HHHHhhc
Q 035556 170 LLSSLKS 176 (261)
Q Consensus 170 ~f~~~~~ 176 (261)
++.++.+
T Consensus 209 ~l~~l~k 215 (409)
T TIGR00540 209 IIDNMAK 215 (409)
T ss_pred HHHHHHH
No 102
>PF07064 RIC1: RIC1; InterPro: IPR009771 This entry represents RIC1 (Ribosomal control protein1) and has been identified in yeast as a Golgi protein involved in retrograde transport to the cis-Golgi network. It forms a heterodimer with Rgp1 and functions as a guanyl-nucleotide exchange factor [] which activates YPT6 by exchanging bound GDP for free GTP. RIC1 is thereby required for efficient fusion of endosome-derived vesicles with the Golgi. The RIC1-RGP1 complex participates in the recycling of SNC1, presumably by mediating fusion of endosomal vesicles with the Golgi compartment and may also be indirectly involved in the transcription of both ribosomal protein genes and ribosomal RNA [, , ].
Probab=22.85 E-value=6e+02 Score=23.37 Aligned_cols=58 Identities=12% Similarity=0.131 Sum_probs=32.1
Q ss_pred cchHHHHHHHHhcCCchHHHHH--HHHHHhccC------CcHHHHHHHHHHhhcCCchhHHHHHHH
Q 035556 97 RHASLFLMRCKKSGNPEALYRQ--GMHDYFSLG------LTNSGFRLLKRAADKKHPEATYVYTII 154 (261)
Q Consensus 97 ~ka~~FL~rCleaGNpeA~Y~~--Gm~~~~~~~------~~~~Gl~lL~~AA~~G~~~A~Y~lgmL 154 (261)
+....++..|++.|+.+..+.. =+..+-... .+..++++|..|...+.-+-.+-+.-+
T Consensus 180 g~P~dLf~~cl~~~~l~tAa~yLlVl~~~e~~~~~~~~~~~~~al~LL~~a~~~~~w~Lc~eL~RF 245 (258)
T PF07064_consen 180 GSPRDLFEECLENGNLKTAASYLLVLQNLEGSSVVKDEESRQCALRLLVMALESGDWDLCFELVRF 245 (258)
T ss_pred CCHHHHHHHHHHcCcHHHHHHHHHHHHhcCCcchhhhHHHHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence 4567888888888887754433 222222222 235666677776666554444443333
No 103
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=22.01 E-value=99 Score=19.22 Aligned_cols=16 Identities=19% Similarity=0.185 Sum_probs=13.8
Q ss_pred hcCCchhHHHHHHHHH
Q 035556 141 DKKHPEATYVYTIIML 156 (261)
Q Consensus 141 ~~G~~~A~Y~lgmL~l 156 (261)
++.++.|.|+||.++.
T Consensus 9 ~P~n~~a~~nla~~~~ 24 (34)
T PF13431_consen 9 NPNNAEAYNNLANLYL 24 (34)
T ss_pred CCCCHHHHHHHHHHHH
Confidence 4668999999999998
No 104
>cd08788 CARD_NOD2_2_CARD15 Caspase activation and recruitment domain of NOD2, repeat 2. Caspase activation and recruitment domain (CARD) similar to that found in human NOD2 (CARD15), repeat 2. NOD2 is a member of the Nod-like receptor (NLR) family, which plays a central role in the innate immune response. NLRs typically contain an N-terminal effector domain, a central nucleotide-binding domain and a C-terminal ligand-binding region of several leucine-rich repeats (LRRs). In NOD2, as well as NOD1, the N-terminal effector domain is a CARD. NOD2 contains two N-terminal CARD repeats. Mutations in NOD2 have been associated with Crohns disease and Blau syndrome. Nod2-CARDs have been shown to interact with the CARD domain of the downstream effector RICK (RIP2, CARDIAK), a serine/threonine kinase. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are pr
Probab=21.82 E-value=1.3e+02 Score=23.34 Aligned_cols=56 Identities=13% Similarity=0.002 Sum_probs=40.0
Q ss_pred hHHHHHHHHhcCCchHHHHHHHHHHhccCCcHHHHHHHHHHhhcCCchhHHHHHHHH
Q 035556 99 ASLFLMRCKKSGNPEALYRQGMHDYFSLGLTNSGFRLLKRAADKKHPEATYVYTIIM 155 (261)
Q Consensus 99 a~~FL~rCleaGNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~~~A~Y~lgmL~ 155 (261)
-..+|.+.++.|...-.=-.+++. -...+.++|..+|..++.+|+..|.+.+.-|+
T Consensus 16 V~~~Ld~ll~~G~is~~Ecd~Ir~-p~~T~sqqARrLLD~V~~KG~~A~~~ll~~vq 71 (81)
T cd08788 16 VDGALELLLTRGFFSSYDCDEIRL-PIFTPSQQARRLLDLVKAKGEGAAKFLLEYVQ 71 (81)
T ss_pred HHHHHHHHHHcCCccHhhcchhhc-CCCChHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 346788888877765555555544 12234579999999999999998888876554
No 105
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=21.75 E-value=1.5e+02 Score=17.77 Aligned_cols=27 Identities=19% Similarity=0.111 Sum_probs=19.9
Q ss_pred hhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 146 EATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 146 ~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.+..++|.++. ..|. .++|.+++.++.
T Consensus 3 ~~~~~la~~~~-~~g~--~~~A~~~~~~al 29 (42)
T PF13374_consen 3 SALNNLANAYR-AQGR--YEEALELLEEAL 29 (42)
T ss_dssp HHHHHHHHHHH-HCT---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHH-hhhh--cchhhHHHHHHH
Confidence 46788999999 5553 667888888776
No 106
>PF05944 Phage_term_smal: Phage small terminase subunit; InterPro: IPR010270 This entry is represented by Bacteriophage P2, GpM. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several phage small terminase subunit proteins as well as some related bacterial sequences []. M protein is probably an endonuclease which directs cos cleavage. The Q, P and M proteins are needed to package DNA into proheads and for the conversion of proheads to capsids.; GO: 0003677 DNA binding, 0004519 endonuclease activity, 0019069 viral capsid assembly
Probab=21.69 E-value=2.1e+02 Score=23.89 Aligned_cols=49 Identities=12% Similarity=0.085 Sum_probs=42.6
Q ss_pred CcchHHHHHHHHhcCC--chHHHHHHHHHHhccCCcHHHHHHHHHHhhcCC
Q 035556 96 DRHASLFLMRCKKSGN--PEALYRQGMHDYFSLGLTNSGFRLLKRAADKKH 144 (261)
Q Consensus 96 ~~ka~~FL~rCleaGN--peA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~G~ 144 (261)
..+|.+|+...+++|+ .+-.+.--|+..+..++-+.|+++-.-|...|.
T Consensus 29 LP~Y~p~v~g~L~~g~g~qd~Vl~~~mvW~~D~Gd~~~AL~~a~yAi~~~l 79 (132)
T PF05944_consen 29 LPKYLPWVEGVLASGSGAQDDVLMTVMVWLFDVGDFDGALDIAEYAIEHGL 79 (132)
T ss_pred HHhHHHHHHHHHHcCCCCcCchHHhhHhhhhcccCHHHHHHHHHHHHHcCC
Confidence 3479999999998555 778888889999999999999999999999886
No 107
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=21.27 E-value=4.3e+02 Score=29.16 Aligned_cols=76 Identities=13% Similarity=0.039 Sum_probs=47.5
Q ss_pred CcchHHHHHHHHhc--CCchHHHHHHHHHHhccCCcHHHHHHHHHHhhc--CCchhHHHHHHHHHhccCcchHHHHHHHH
Q 035556 96 DRHASLFLMRCKKS--GNPEALYRQGMHDYFSLGLTNSGFRLLKRAADK--KHPEATYVYTIIMLLCCGSQFKKQGFELL 171 (261)
Q Consensus 96 ~~ka~~FL~rClea--GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~~--G~~~A~Y~lgmL~l~~~G~e~~~~a~~~f 171 (261)
...+...+.++++. .|+++.+.++... ...++.++|+..+.++... .++.+.+.+|.++. ..|. .++|+++|
T Consensus 619 ~~~A~~~y~~al~~~P~~~~a~~~la~~~-~~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~-~~g~--~~eA~~~~ 694 (1157)
T PRK11447 619 YAAARAAYQRVLTREPGNADARLGLIEVD-IAQGDLAAARAQLAKLPATANDSLNTQRRVALAWA-ALGD--TAAAQRTF 694 (1157)
T ss_pred HHHHHHHHHHHHHhCCCCHHHHHHHHHHH-HHCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHH-hCCC--HHHHHHHH
Confidence 45566677777653 4556666555443 3446667888888876643 34566777777777 4443 55677777
Q ss_pred HHhh
Q 035556 172 SSLK 175 (261)
Q Consensus 172 ~~~~ 175 (261)
.++.
T Consensus 695 ~~al 698 (1157)
T PRK11447 695 NRLI 698 (1157)
T ss_pred HHHh
Confidence 7765
No 108
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=20.80 E-value=4.2e+02 Score=23.76 Aligned_cols=63 Identities=8% Similarity=0.049 Sum_probs=40.9
Q ss_pred CCchHHHHHHHHHHhccCCcHHHHHHHHHHhh--cCCch---hHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 110 GNPEALYRQGMHDYFSLGLTNSGFRLLKRAAD--KKHPE---ATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 110 GNpeA~Y~~Gm~~~~~~~~~~~Gl~lL~~AA~--~G~~~---A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
.+++..|.+|+.. +..++-.+|...+.+... ++.+. |.|.+|..++ -.+. .++|+..|+++.+
T Consensus 30 ~~~~~~Y~~A~~~-~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy-~~~~--y~~A~~~~e~fi~ 97 (243)
T PRK10866 30 NPPSEIYATAQQK-LQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYY-KNAD--LPLAQAAIDRFIR 97 (243)
T ss_pred CCHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHH-hcCC--HHHHHHHHHHHHH
Confidence 4566677777766 446666788888877654 22333 3477777777 3332 5678888887763
No 109
>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=20.42 E-value=4.6e+02 Score=23.60 Aligned_cols=67 Identities=19% Similarity=0.220 Sum_probs=46.8
Q ss_pred HhcCCchHHHHHHHH--HHhccCCcHHHHHHHHHHhhcC--CchhHHHHHHHHHhccCcchHHHHHHHHHHhhc
Q 035556 107 KKSGNPEALYRQGMH--DYFSLGLTNSGFRLLKRAADKK--HPEATYVYTIIMLLCCGSQFKKQGFELLSSLKS 176 (261)
Q Consensus 107 leaGNpeA~Y~~Gm~--~~~~~~~~~~Gl~lL~~AA~~G--~~~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~~ 176 (261)
....+|+..|..++. .+...++..+|...+.++.... ++.+.+.+|.++. -.|. .+++.+++.++..
T Consensus 106 ~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~-~~g~--~~eA~~~l~~~l~ 176 (355)
T cd05804 106 WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLE-MQGR--FKEGIAFMESWRD 176 (355)
T ss_pred cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHH-HcCC--HHHHHHHHHhhhh
Confidence 445778777777764 3355666788999999987643 4667888888888 4443 5667777777663
No 110
>PRK14700 recombination factor protein RarA; Provisional
Probab=20.20 E-value=3e+02 Score=26.28 Aligned_cols=64 Identities=13% Similarity=0.089 Sum_probs=42.4
Q ss_pred CCCCcchHHHHHHHHhcC-CchHHHHHHHHHH---hccCC-c--HHHHHHHHHHhhcCCchhHHHHHHHHH
Q 035556 93 PMTDRHASLFLMRCKKSG-NPEALYRQGMHDY---FSLGL-T--NSGFRLLKRAADKKHPEATYVYTIIML 156 (261)
Q Consensus 93 ~~~~~ka~~FL~rCleaG-NpeA~Y~~Gm~~~---~~~~~-~--~~Gl~lL~~AA~~G~~~A~Y~lgmL~l 156 (261)
+-+.+-+.-||-|.+++| +|.++.++=++.. .+.-| . ..+..-+..+..-|-|+|.+.|+..-+
T Consensus 139 GSDpDAAlYyLArml~~GEDp~~IaRRLii~AsEDIGlAdP~al~~a~aa~~A~~~iG~PEa~i~La~avi 209 (300)
T PRK14700 139 GTDPDAAIFWLSVMLDNGVDPLVIARRMLCIASEDIGNADPQALRVAMDAWNAYEKLGMPEGRLVLAQAAI 209 (300)
T ss_pred cCCccHHHHHHHHHHHcCCCHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence 344556777899999999 9999888766554 11112 1 344445555556788999988876544
No 111
>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=20.13 E-value=1.5e+02 Score=15.27 Aligned_cols=27 Identities=22% Similarity=0.192 Sum_probs=16.8
Q ss_pred hhHHHHHHHHHhccCcchHHHHHHHHHHhh
Q 035556 146 EATYVYTIIMLLCCGSQFKKQGFELLSSLK 175 (261)
Q Consensus 146 ~A~Y~lgmL~l~~~G~e~~~~a~~~f~~~~ 175 (261)
.+.+.+|++++ ..+. .+++...|.++.
T Consensus 2 ~~~~~~a~~~~-~~~~--~~~a~~~~~~~~ 28 (34)
T smart00028 2 EALYNLGNAYL-KLGD--YDEALEYYEKAL 28 (34)
T ss_pred hHHHHHHHHHH-HHhh--HHHHHHHHHHHH
Confidence 45677788777 3332 556766776654
Done!