Query 038912
Match_columns 199
No_of_seqs 95 out of 97
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 04:31:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038912.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038912hhsearch_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 2.3E-06 5E-11 55.7 2.8 46 7-55 1-46 (47)
2 smart00256 FBOX A Receptor for 97.7 7.9E-05 1.7E-09 45.9 4.1 40 10-52 1-40 (41)
3 PF00646 F-box: F-box domain; 97.3 0.00014 3E-09 46.9 1.5 42 7-51 3-44 (48)
4 KOG1550 Extracellular protein 96.7 0.0076 1.6E-07 57.9 8.4 78 66-146 312-391 (552)
5 KOG2997 F-box protein FBX9 [Ge 96.0 0.0058 1.2E-07 55.8 3.2 50 7-56 107-158 (366)
6 KOG2120 SCF ubiquitin ligase, 93.7 0.065 1.4E-06 49.3 3.5 46 7-55 98-143 (419)
7 PF08238 Sel1: Sel1 repeat; I 91.8 0.23 5.1E-06 29.8 3.1 33 79-111 1-39 (39)
8 COG0790 FOG: TPR repeat, SEL1 91.4 1.2 2.5E-05 38.3 8.2 58 67-124 97-160 (292)
9 COG0790 FOG: TPR repeat, SEL1 90.7 1.6 3.6E-05 37.3 8.4 77 65-145 131-217 (292)
10 smart00671 SEL1 Sel1-like repe 89.7 0.67 1.4E-05 27.1 3.7 33 79-111 1-36 (36)
11 PRK11906 transcriptional regul 83.2 3.5 7.6E-05 39.5 6.5 70 68-145 325-398 (458)
12 PF13414 TPR_11: TPR repeat; P 83.1 3.8 8.3E-05 27.2 5.1 62 78-146 2-65 (69)
13 PRK15359 type III secretion sy 81.9 7.1 0.00015 30.6 6.9 75 65-147 42-120 (144)
14 KOG1550 Extracellular protein 81.6 4.2 9.1E-05 39.2 6.6 77 67-146 232-320 (552)
15 PRK10370 formate-dependent nit 78.0 11 0.00023 31.4 7.1 67 74-147 102-172 (198)
16 PLN03215 ascorbic acid mannose 74.4 3.4 7.3E-05 38.6 3.4 37 8-46 5-41 (373)
17 PLN03088 SGT1, suppressor of 73.4 23 0.00051 32.1 8.6 88 65-160 20-119 (356)
18 TIGR02552 LcrH_SycD type III s 72.7 36 0.00077 25.1 8.7 75 65-147 35-113 (135)
19 PF13432 TPR_16: Tetratricopep 69.8 16 0.00035 23.8 5.2 51 89-146 6-58 (65)
20 PRK12370 invasion protein regu 66.1 21 0.00045 34.2 6.9 73 66-146 323-399 (553)
21 TIGR02795 tol_pal_ybgF tol-pal 65.5 45 0.00097 23.5 7.5 61 79-147 39-104 (119)
22 PRK11189 lipoprotein NlpI; Pro 65.1 25 0.00055 30.7 6.9 64 75-146 94-159 (296)
23 PF14559 TPR_19: Tetratricopep 58.6 48 0.001 21.5 6.2 50 92-148 3-54 (68)
24 KOG0543 FKBP-type peptidyl-pro 57.9 44 0.00096 31.6 7.3 108 72-193 256-378 (397)
25 PRK10803 tol-pal system protei 57.3 64 0.0014 28.3 8.0 60 79-146 180-244 (263)
26 KOG4014 Uncharacterized conser 52.4 70 0.0015 27.9 7.1 96 68-170 57-157 (248)
27 PF13371 TPR_9: Tetratricopept 51.0 60 0.0013 21.3 5.4 52 89-147 4-57 (73)
28 PRK15174 Vi polysaccharide exp 49.6 57 0.0012 32.1 7.0 49 77-126 108-158 (656)
29 TIGR02795 tol_pal_ybgF tol-pal 49.5 89 0.0019 21.9 6.5 60 79-146 2-66 (119)
30 PF12895 Apc3: Anaphase-promot 47.2 45 0.00097 23.1 4.5 72 66-144 8-83 (84)
31 KOG4014 Uncharacterized conser 47.2 2E+02 0.0043 25.2 9.4 94 44-138 102-226 (248)
32 TIGR02917 PEP_TPR_lipo putativ 45.7 82 0.0018 29.8 7.2 76 64-146 787-864 (899)
33 PRK10564 maltose regulon perip 45.4 28 0.0006 31.8 3.8 37 79-115 256-292 (303)
34 TIGR02521 type_IV_pilW type IV 42.4 1.5E+02 0.0033 22.6 7.5 46 81-127 137-184 (234)
35 PRK11447 cellulose synthase su 42.4 1.1E+02 0.0024 32.0 8.2 75 64-146 478-556 (1157)
36 PRK15174 Vi polysaccharide exp 41.0 1.3E+02 0.0029 29.5 8.1 28 77-105 142-169 (656)
37 TIGR00990 3a0801s09 mitochondr 39.2 1E+02 0.0022 29.6 6.9 62 77-146 397-460 (615)
38 PLN03098 LPA1 LOW PSII ACCUMUL 37.0 1.3E+02 0.0028 29.0 7.0 65 74-146 70-139 (453)
39 KOG0281 Beta-TrCP (transducin 36.8 26 0.00057 33.1 2.3 59 1-62 69-131 (499)
40 PF13428 TPR_14: Tetratricopep 35.9 83 0.0018 19.3 4.0 39 81-120 3-43 (44)
41 TIGR02521 type_IV_pilW type IV 35.6 1.8E+02 0.0038 22.2 6.6 72 67-146 85-162 (234)
42 PF01851 PC_rep: Proteasome/cy 34.5 48 0.001 20.2 2.6 25 114-146 2-26 (35)
43 PRK09782 bacteriophage N4 rece 34.5 1.4E+02 0.003 31.4 7.3 75 65-147 627-705 (987)
44 PRK12370 invasion protein regu 34.4 1.5E+02 0.0032 28.4 7.1 28 78-106 371-398 (553)
45 PF13174 TPR_6: Tetratricopept 34.3 47 0.001 18.3 2.4 27 113-146 1-27 (33)
46 PRK15359 type III secretion sy 33.2 1.6E+02 0.0036 22.7 6.1 71 68-147 14-86 (144)
47 PF11286 DUF3087: Protein of u 32.8 49 0.0011 27.7 3.1 36 70-105 99-139 (165)
48 PRK10370 formate-dependent nit 31.8 2.6E+02 0.0057 23.0 7.4 66 76-147 70-138 (198)
49 PF07064 RIC1: RIC1; InterPro 31.3 2.1E+02 0.0046 25.1 7.1 61 11-83 139-199 (258)
50 cd00189 TPR Tetratricopeptide 30.9 1.3E+02 0.0029 18.5 5.9 34 93-126 13-48 (100)
51 PF12976 DUF3860: Domain of Un 28.9 24 0.00052 26.3 0.6 38 14-51 20-62 (92)
52 PRK11189 lipoprotein NlpI; Pro 28.9 2E+02 0.0043 25.0 6.5 62 77-146 62-125 (296)
53 PF13013 F-box-like_2: F-box-l 28.7 78 0.0017 24.5 3.4 35 6-43 21-55 (109)
54 PF12688 TPR_5: Tetratrico pep 28.3 2.8E+02 0.0061 21.4 8.7 88 66-161 20-116 (120)
55 TIGR03302 OM_YfiO outer membra 28.2 2.4E+02 0.0052 22.9 6.6 38 90-127 43-85 (235)
56 CHL00033 ycf3 photosystem I as 25.5 3.2E+02 0.007 21.2 7.1 50 89-145 44-98 (168)
57 PRK10049 pgaA outer membrane p 24.7 3.6E+02 0.0077 27.0 8.1 74 64-146 66-143 (765)
58 PF08321 PPP5: PPP5 TPR repeat 24.4 86 0.0019 23.6 2.9 54 49-123 27-81 (95)
59 PRK11788 tetratricopeptide rep 24.0 3E+02 0.0065 23.9 6.8 64 76-147 32-97 (389)
60 KOG1126 DNA-binding cell divis 23.0 5.4E+02 0.012 26.0 8.8 101 67-176 509-625 (638)
61 KOG4162 Predicted calmodulin-b 22.7 2.2E+02 0.0048 29.3 6.2 78 68-146 465-547 (799)
62 COG1729 Uncharacterized protei 22.6 3.5E+02 0.0077 24.1 6.9 62 78-147 177-243 (262)
63 TIGR02552 LcrH_SycD type III s 22.5 3.1E+02 0.0067 19.9 6.5 62 77-146 15-78 (135)
64 TIGR02917 PEP_TPR_lipo putativ 22.2 3.8E+02 0.0083 25.3 7.5 72 65-145 754-829 (899)
65 PF14852 Fis1_TPR_N: Fis1 N-te 21.0 2E+02 0.0044 17.7 3.6 31 113-147 2-32 (35)
66 KOG1379 Serine/threonine prote 21.0 76 0.0016 29.3 2.4 37 5-44 255-291 (330)
67 PRK02603 photosystem I assembl 20.9 4.1E+02 0.009 20.7 6.9 45 81-126 74-120 (172)
68 PF07719 TPR_2: Tetratricopept 20.7 1.7E+02 0.0036 16.1 3.3 26 113-145 2-27 (34)
69 PF00515 TPR_1: Tetratricopept 20.2 1.8E+02 0.0039 16.3 3.3 27 113-146 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=98.10 E-value=2.3e-06 Score=55.67 Aligned_cols=46 Identities=37% Similarity=0.596 Sum_probs=38.8
Q ss_pred CCCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhhhccc
Q 038912 7 IFSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLRQASI 55 (199)
Q Consensus 7 ~~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~~asl 55 (199)
+..||+|++.+|++.+ ++.|+.++.++||++++++.++.+.+++.+
T Consensus 1 i~~LP~Eil~~If~~L---~~~dl~~~~~vcr~w~~~~~~~~lW~~~~~ 46 (47)
T PF12937_consen 1 ISSLPDEILLEIFSYL---DPRDLLRLSLVCRRWRRIANDNSLWRRLCL 46 (47)
T ss_dssp CCCS-HHHHHHHHTTS----HHHHHHHTTSSHHHHHHHTCCCHHHHHC-
T ss_pred ChHhHHHHHHHHHhcC---CHHHHHHHHHHHHHHHHHHCChhhhhhhcc
Confidence 5689999999999876 888999999999999999999888887643
No 2
>smart00256 FBOX A Receptor for Ubiquitination Targets.
Probab=97.66 E-value=7.9e-05 Score=45.93 Aligned_cols=40 Identities=28% Similarity=0.408 Sum_probs=36.4
Q ss_pred CChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhhh
Q 038912 10 LPDELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLRQ 52 (199)
Q Consensus 10 LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~~ 52 (199)
||+|++.+|+..+ ++.|+.++.++||+|+.++.++.+.++
T Consensus 1 lP~~ll~~I~~~l---~~~d~~~~~~vc~~~~~~~~~~~~~~~ 40 (41)
T smart00256 1 LPDEILEEILSKL---PPKDLLRLRKVSRRWRSLIDSHDFWFK 40 (41)
T ss_pred CCHHHHHHHHHcC---CHHHHHHHHHHHHHHHHHhcChhhhhc
Confidence 7999999999988 579999999999999999999887653
No 3
>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=97.25 E-value=0.00014 Score=46.86 Aligned_cols=42 Identities=31% Similarity=0.472 Sum_probs=35.4
Q ss_pred CCCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhh
Q 038912 7 IFSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLR 51 (199)
Q Consensus 7 ~~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~ 51 (199)
|..||+|++.+|+.++ ++.|+.++.++||+++.++.+.....
T Consensus 3 ~~~LP~~il~~Il~~l---~~~~~~~l~~vsk~~~~~~~~~~~~~ 44 (48)
T PF00646_consen 3 LSDLPDEILQEILSYL---DPKDLLRLSLVSKRWRSLVDSPRLWK 44 (48)
T ss_dssp HHHS-HHHHHHHHHTS----HHHHHHHCTT-HHHHHHHTTHHHHH
T ss_pred HHHCCHHHHHHHHHHC---cHHHHHHHHHHhhHHHHHHcCCCccH
Confidence 5679999999999998 88999999999999999999887654
No 4
>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=96.67 E-value=0.0076 Score=57.91 Aligned_cols=78 Identities=22% Similarity=0.303 Sum_probs=65.3
Q ss_pred chHHHHHHHhcCCccchHHHHHHHHhcc--CChHHHHHHHHHHHhcCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHH
Q 038912 66 NYSFLEKCRDSGNPEALYKQGVVEFFSY--SNLEAGVAYLDIATKSGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLD 143 (199)
Q Consensus 66 ~~~FlkrC~~aGNpeA~Y~~Gm~~~f~~--~~~~~Gl~lL~~AA~~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~ 143 (199)
+..+++++.+.|||+|+|.+|...+... ++...+.++...||..||..|.|-+++....-.+.+. ...+++.++.
T Consensus 312 A~~~~~~aA~~g~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r---~~~~A~~~~k 388 (552)
T KOG1550|consen 312 ALKLYTKAAELGNPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVER---NLELAFAYYK 388 (552)
T ss_pred HHHHHHHHHhcCCchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCC---CHHHHHHHHH
Confidence 4688999999999999999999999998 7778999999999999999999999999994444444 3456666666
Q ss_pred HHh
Q 038912 144 KVY 146 (199)
Q Consensus 144 ~l~ 146 (199)
+.-
T Consensus 389 ~aA 391 (552)
T KOG1550|consen 389 KAA 391 (552)
T ss_pred HHH
Confidence 553
No 5
>KOG2997 consensus F-box protein FBX9 [General function prediction only]
Probab=95.99 E-value=0.0058 Score=55.85 Aligned_cols=50 Identities=32% Similarity=0.416 Sum_probs=46.3
Q ss_pred CCCCChHHHHHHHHHhcc--CCHHHHHHHHHhcHhHHHhhcchhHhhhcccc
Q 038912 7 IFSLPDELLSEILARVGA--CSLDDLLNAGLSCKLFNEITFDKYVLRQASIE 56 (199)
Q Consensus 7 ~~~LpdDLlv~I~~kVA~--~s~~DL~~~~~tcKrf~~l~~~~~Vl~~asl~ 56 (199)
|..||||+|..|+++|-+ -++.+|.++-++||-|...+.||.+.+.+.++
T Consensus 107 ~~~LPdEvLm~I~~~vv~~~~d~rsL~~~s~vCr~F~~~~R~~~lwR~aC~K 158 (366)
T KOG2997|consen 107 ISVLPDEVLMRIFRWVVSSLLDLRSLEQLSLVCRGFYKCARDPELWRLACLK 158 (366)
T ss_pred hhhCCHHHHHHHHHHHHhhhcchhhHHHhHhhHHHHHHHHcChHHHHHHHHH
Confidence 678999999999999986 48999999999999999999999999988764
No 6
>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]
Probab=93.73 E-value=0.065 Score=49.31 Aligned_cols=46 Identities=28% Similarity=0.431 Sum_probs=40.4
Q ss_pred CCCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhhhccc
Q 038912 7 IFSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLRQASI 55 (199)
Q Consensus 7 ~~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~~asl 55 (199)
+++|||+++..|++.+ +--||..+...||||.+++.|........+
T Consensus 98 ~~slpDEill~IFs~L---~kk~LL~~~~VC~Rfyr~~~de~lW~~lDl 143 (419)
T KOG2120|consen 98 WDSLPDEILLGIFSCL---CKKELLKVSGVCKRFYRLASDESLWQTLDL 143 (419)
T ss_pred cccCCHHHHHHHHHhc---cHHHHHHHHHHHHHHhhccccccceeeecc
Confidence 7899999999999998 778999999999999999998776665443
No 7
>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=91.76 E-value=0.23 Score=29.80 Aligned_cols=33 Identities=24% Similarity=0.464 Sum_probs=23.8
Q ss_pred ccchHHHHHHHHhccCC------hHHHHHHHHHHHhcCC
Q 038912 79 PEALYKQGVVEFFSYSN------LEAGVAYLDIATKSGH 111 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~~~------~~~Gl~lL~~AA~~gh 111 (199)
|+|+|..|+..+|..+. .+.++.++.+|+..||
T Consensus 1 a~A~~~lg~~~~~~~g~~g~~~d~~~A~~~~~~Aa~~g~ 39 (39)
T PF08238_consen 1 AEAQYNLGMYYMYYNGKGGVPKDYEKAFKWYEKAAEQGH 39 (39)
T ss_dssp HHHHHHHHHHHHHHHTSTSSCHHHHHHHHHHHHHHHTT-
T ss_pred ChHHHHHHHHHhhhhccCCccccccchHHHHHHHHHccC
Confidence 67888899555444443 4799999999998886
No 8
>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]
Probab=91.41 E-value=1.2 Score=38.26 Aligned_cols=58 Identities=26% Similarity=0.406 Sum_probs=50.3
Q ss_pred hHHHHHHHhcCCccchHHHHHHHHhcc---CChHHHHHHHHHHHhcCChhH---HHHHHHHHHh
Q 038912 67 YSFLEKCRDSGNPEALYKQGVVEFFSY---SNLEAGVAYLDIATKSGHLGA---SYILGVIFLC 124 (199)
Q Consensus 67 ~~FlkrC~~aGNpeA~Y~~Gm~~~f~~---~~~~~Gl~lL~~AA~~gh~~A---~Y~~~ml~~c 124 (199)
..++..-.+.|+|+++|..|.....-. ++...+..++.+||..||.+| .|.++.+..-
T Consensus 97 ~~~~~~~a~~g~~~a~~~lg~~~~~G~gv~~d~~~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~ 160 (292)
T COG0790 97 ADWYRCAAADGLAEALFNLGLMYANGRGVPLDLVKALKYYEKAAKLGNVEAALAMYRLGLAYLS 160 (292)
T ss_pred HHHHHHHhhcccHHHHHhHHHHHhcCCCcccCHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHc
Confidence 467778899999999999999998854 467999999999999999999 8888887773
No 9
>COG0790 FOG: TPR repeat, SEL1 subfamily [General function prediction only]
Probab=90.70 E-value=1.6 Score=37.34 Aligned_cols=77 Identities=21% Similarity=0.306 Sum_probs=47.2
Q ss_pred cchHHHHHHHhcCCccc---hHHHHHHHHhcc---C---ChHHHHHHHHHHHhcCChhHHHHHHHHHH-hcCCCCCChhh
Q 038912 65 KNYSFLEKCRDSGNPEA---LYKQGVVEFFSY---S---NLEAGVAYLDIATKSGHLGASYILGVIFL-CKDDEDDDNES 134 (199)
Q Consensus 65 ~~~~FlkrC~~aGNpeA---~Y~~Gm~~~f~~---~---~~~~Gl~lL~~AA~~gh~~A~Y~~~ml~~-c~G~~~~d~~~ 134 (199)
.+..++.+-++.||++| +|..|....... . +...++..+.+|+..||..|-+.+|.+.. +.|.++ .
T Consensus 131 ~A~~~~~~Aa~~g~~~a~~~~~~l~~~~~~g~~~~~~~~~~~~A~~~~~~aa~~~~~~a~~~lg~~y~~G~Gv~~----d 206 (292)
T COG0790 131 KALKYYEKAAKLGNVEAALAMYRLGLAYLSGLQALAVAYDDKKALYLYRKAAELGNPDAQLLLGRMYEKGLGVPR----D 206 (292)
T ss_pred HHHHHHHHHHHcCChhHHHHHHHHHHHHHcChhhhcccHHHHhHHHHHHHHHHhcCHHHHHHHHHHHHcCCCCCc----C
Confidence 34567777777777777 777776655541 1 11357777777777777777777776666 434332 2
Q ss_pred HHHHHHHHHHH
Q 038912 135 NQKGMQHLDKV 145 (199)
Q Consensus 135 ~~~g~~~~~~l 145 (199)
-+++++.+...
T Consensus 207 ~~~A~~wy~~A 217 (292)
T COG0790 207 LKKAFRWYKKA 217 (292)
T ss_pred HHHHHHHHHHH
Confidence 34455555433
No 10
>smart00671 SEL1 Sel1-like repeats. These represent a subfamily of TPR (tetratricopeptide repeat) sequences.
Probab=89.66 E-value=0.67 Score=27.14 Aligned_cols=33 Identities=27% Similarity=0.458 Sum_probs=25.9
Q ss_pred ccchHHHHHHHHhcc---CChHHHHHHHHHHHhcCC
Q 038912 79 PEALYKQGVVEFFSY---SNLEAGVAYLDIATKSGH 111 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~---~~~~~Gl~lL~~AA~~gh 111 (199)
|+|+|..|...+... +|.+.++.++.+||..||
T Consensus 1 ~~a~~~lg~~~~~G~g~~~d~~~A~~~~~~Aa~~g~ 36 (36)
T smart00671 1 AEAQYNLGQMYEYGLGVKKDLEKALEYYKKAAELGN 36 (36)
T ss_pred CHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHccC
Confidence 567888887776643 477899999999998775
No 11
>PRK11906 transcriptional regulator; Provisional
Probab=83.19 E-value=3.5 Score=39.45 Aligned_cols=70 Identities=11% Similarity=0.124 Sum_probs=58.6
Q ss_pred HHHHHH--HhcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHH
Q 038912 68 SFLEKC--RDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLD 143 (199)
Q Consensus 68 ~FlkrC--~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~ 143 (199)
+...|- ++.+||-|.++.|....+..+ .+.|..++++|-. +-.+.|.|.+|.+++.+|.. ++|++++.
T Consensus 325 ~~A~rAveld~~Da~a~~~~g~~~~~~~~-~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~-------~~a~~~i~ 396 (458)
T PRK11906 325 ELLDYVSDITTVDGKILAIMGLITGLSGQ-AKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKI-------EEARICID 396 (458)
T ss_pred HHHHHHHhcCCCCHHHHHHHHHHHHhhcc-hhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCH-------HHHHHHHH
Confidence 455553 467899999999999999888 8999999999764 45799999999999999975 88999888
Q ss_pred HH
Q 038912 144 KV 145 (199)
Q Consensus 144 ~l 145 (199)
+-
T Consensus 397 ~a 398 (458)
T PRK11906 397 KS 398 (458)
T ss_pred HH
Confidence 73
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=83.10 E-value=3.8 Score=27.16 Aligned_cols=62 Identities=23% Similarity=0.452 Sum_probs=47.7
Q ss_pred CccchHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 78 NPEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 78 NpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
|+++.+.+|...+ ..++-+.++..+.+|..- .+..+.|.+|.+....|. ..+++++++.+..
T Consensus 2 ~a~~~~~~g~~~~-~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~------~~~~A~~~~~~al 65 (69)
T PF13414_consen 2 NAEAWYNLGQIYF-QQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGK------DYEEAIEDFEKAL 65 (69)
T ss_dssp SHHHHHHHHHHHH-HTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTT------HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCc------cHHHHHHHHHHHH
Confidence 6788888897654 577889999999998754 578999999999998882 2366777766543
No 13
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=81.86 E-value=7.1 Score=30.58 Aligned_cols=75 Identities=8% Similarity=-0.010 Sum_probs=56.6
Q ss_pred cchHHHHHHHh--cCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 65 KNYSFLEKCRD--SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 65 ~~~~FlkrC~~--aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
.+..++.+.+. -.|+++.+..|.... ..++.+.++..+.+|.. +++..+.|-+|+.+...|.. +++++
T Consensus 42 ~A~~~~~~al~~~P~~~~a~~~lg~~~~-~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~-------~eAi~ 113 (144)
T PRK15359 42 RAVIDFSWLVMAQPWSWRAHIALAGTWM-MLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEP-------GLARE 113 (144)
T ss_pred HHHHHHHHHHHcCCCcHHHHHHHHHHHH-HHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCH-------HHHHH
Confidence 34455555444 467888888887644 46777899999999775 57899999999999988865 77888
Q ss_pred HHHHHhh
Q 038912 141 HLDKVYR 147 (199)
Q Consensus 141 ~~~~l~~ 147 (199)
.+.+...
T Consensus 114 ~~~~Al~ 120 (144)
T PRK15359 114 AFQTAIK 120 (144)
T ss_pred HHHHHHH
Confidence 8877653
No 14
>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]
Probab=81.62 E-value=4.2 Score=39.23 Aligned_cols=77 Identities=25% Similarity=0.419 Sum_probs=62.5
Q ss_pred hHHHHHHHhcCCccchHHHHHHHHhc----cCChHHHHHHHHHHHh-------cCChhHHHHHHHHHH-hcCCCCCChhh
Q 038912 67 YSFLEKCRDSGNPEALYKQGVVEFFS----YSNLEAGVAYLDIATK-------SGHLGASYILGVIFL-CKDDEDDDNES 134 (199)
Q Consensus 67 ~~FlkrC~~aGNpeA~Y~~Gm~~~f~----~~~~~~Gl~lL~~AA~-------~gh~~A~Y~~~ml~~-c~G~~~~d~~~ 134 (199)
..|++.-++.||..|.|..|...++- .+|.+.++.+++.||. .|+..|.|-+|.+.+ ..+..+. .
T Consensus 232 ~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~~~~~---d 308 (552)
T KOG1550|consen 232 FKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGLPPAQYGLGRLYLQGLGVEKI---D 308 (552)
T ss_pred HHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcCCccccHHHHHHhcCCCCccc---c
Confidence 47899999999999999999999887 4577999999999998 899999999999999 4444321 4
Q ss_pred HHHHHHHHHHHh
Q 038912 135 NQKGMQHLDKVY 146 (199)
Q Consensus 135 ~~~g~~~~~~l~ 146 (199)
.+.+++++...-
T Consensus 309 ~~~A~~~~~~aA 320 (552)
T KOG1550|consen 309 YEKALKLYTKAA 320 (552)
T ss_pred HHHHHHHHHHHH
Confidence 566666666543
No 15
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=78.01 E-value=11 Score=31.40 Aligned_cols=67 Identities=15% Similarity=0.127 Sum_probs=49.4
Q ss_pred HhcCCccchHHHHHHHHhccCC--hHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 74 RDSGNPEALYKQGVVEFFSYSN--LEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 74 ~~aGNpeA~Y~~Gm~~~f~~~~--~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
++-.|+++.+..|...++..+. .+.+..++.+|... .+..|.+.+|+..+-.|.. +++++++.++..
T Consensus 102 l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~-------~~Ai~~~~~aL~ 172 (198)
T PRK10370 102 LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADY-------AQAIELWQKVLD 172 (198)
T ss_pred hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCH-------HHHHHHHHHHHh
Confidence 3456788888888877777665 37888888886643 4788888888888877754 777777777654
No 16
>PLN03215 ascorbic acid mannose pathway regulator 1; Provisional
Probab=74.38 E-value=3.4 Score=38.55 Aligned_cols=37 Identities=27% Similarity=0.336 Sum_probs=33.5
Q ss_pred CCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcc
Q 038912 8 FSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEITFD 46 (199)
Q Consensus 8 ~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~ 46 (199)
..||+|||..|++++ .|..|+..+...|+..|.++.-
T Consensus 5 s~Lp~dll~~i~~~l--~~~~d~~~~~~vC~sWr~a~~~ 41 (373)
T PLN03215 5 STLPEELLHMIAGRL--FSNVELKRFRSICRSWRSSVSG 41 (373)
T ss_pred hhCCHHHHHHHHhhC--CcHHHHHHHHhhhhhHHHhccc
Confidence 469999999999999 7788999999999999997763
No 17
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=73.40 E-value=23 Score=32.07 Aligned_cols=88 Identities=17% Similarity=0.196 Sum_probs=62.8
Q ss_pred cchHHHHHH--HhcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 65 KNYSFLEKC--RDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 65 ~~~~FlkrC--~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
.+...+.+. .+.+|+.+.+.+|... +..++.+.++..+.+|.. +.+..|.|.+|++++-.|.. +++++
T Consensus 20 ~Ai~~~~~Al~~~P~~~~a~~~~a~~~-~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~~-------~eA~~ 91 (356)
T PLN03088 20 LAVDLYTQAIDLDPNNAELYADRAQAN-IKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEY-------QTAKA 91 (356)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCH-------HHHHH
Confidence 334445543 3456788888888764 567888999999999843 46889999999999988865 77888
Q ss_pred HHHHHhh-----h---hhHHHHHHHHHH
Q 038912 141 HLDKVYR-----A---KRLSQCRNKLQS 160 (199)
Q Consensus 141 ~~~~l~~-----~---r~~~~~r~~ik~ 160 (199)
+|.+... . ..+..|..+++.
T Consensus 92 ~~~~al~l~P~~~~~~~~l~~~~~kl~~ 119 (356)
T PLN03088 92 ALEKGASLAPGDSRFTKLIKECDEKIAE 119 (356)
T ss_pred HHHHHHHhCCCCHHHHHHHHHHHHHHHh
Confidence 8877653 1 166666666643
No 18
>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=72.70 E-value=36 Score=25.12 Aligned_cols=75 Identities=8% Similarity=0.063 Sum_probs=51.7
Q ss_pred cchHHHHHHHh--cCCccchHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 65 KNYSFLEKCRD--SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 65 ~~~~FlkrC~~--aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
.+...++++++ ..|+++.+..|... +..++.+.++..+.++... ......|.+|.++.-.|.. +++++
T Consensus 35 ~A~~~~~~~~~~~p~~~~~~~~la~~~-~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g~~-------~~A~~ 106 (135)
T TIGR02552 35 EALKLFQLLAAYDPYNSRYWLGLAACC-QMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEP-------ESALK 106 (135)
T ss_pred HHHHHHHHHHHhCCCcHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcCCH-------HHHHH
Confidence 33455555543 56777887777543 4456678888888887533 3578888999999988864 77777
Q ss_pred HHHHHhh
Q 038912 141 HLDKVYR 147 (199)
Q Consensus 141 ~~~~l~~ 147 (199)
.|.+...
T Consensus 107 ~~~~al~ 113 (135)
T TIGR02552 107 ALDLAIE 113 (135)
T ss_pred HHHHHHH
Confidence 7776664
No 19
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=69.77 E-value=16 Score=23.83 Aligned_cols=51 Identities=16% Similarity=0.323 Sum_probs=39.8
Q ss_pred HHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 89 EFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 89 ~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
.++..++.+.++..+.++... .+..|.|.+|.+++-.|.. +++..+|.++.
T Consensus 6 ~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~-------~~A~~~~~~a~ 58 (65)
T PF13432_consen 6 ALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRY-------DEALAYYERAL 58 (65)
T ss_dssp HHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-H-------HHHHHHHHHHH
T ss_pred HHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-------HHHHHHHHHHH
Confidence 466777889999999997755 4789999999999988864 66777777654
No 20
>PRK12370 invasion protein regulator; Provisional
Probab=66.07 E-value=21 Score=34.17 Aligned_cols=73 Identities=18% Similarity=0.215 Sum_probs=53.8
Q ss_pred chHHHHHHH--hcCCccchHHHHHHHHhccCChHHHHHHHHHHH--hcCChhHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038912 66 NYSFLEKCR--DSGNPEALYKQGVVEFFSYSNLEAGVAYLDIAT--KSGHLGASYILGVIFLCKDDEDDDNESNQKGMQH 141 (199)
Q Consensus 66 ~~~FlkrC~--~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA--~~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~ 141 (199)
+...+++.+ +-+|++|++..|.... ..++.+.|+..+++|. ++.++.|.|.+|.+++-.|.. ++++.+
T Consensus 323 A~~~~~~Al~ldP~~~~a~~~lg~~~~-~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~-------~eAi~~ 394 (553)
T PRK12370 323 AKEHAIKATELDHNNPQALGLLGLINT-IHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQL-------EEALQT 394 (553)
T ss_pred HHHHHHHHHhcCCCCHHHHHHHHHHHH-HccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-------HHHHHH
Confidence 344555544 3578889999887754 4567788999998865 345788999999999988865 677777
Q ss_pred HHHHh
Q 038912 142 LDKVY 146 (199)
Q Consensus 142 ~~~l~ 146 (199)
+.+..
T Consensus 395 ~~~Al 399 (553)
T PRK12370 395 INECL 399 (553)
T ss_pred HHHHH
Confidence 77765
No 21
>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=65.48 E-value=45 Score=23.47 Aligned_cols=61 Identities=20% Similarity=0.262 Sum_probs=41.3
Q ss_pred ccchHHHHHHHHhccCChHHHHHHHHHHHh--cCC---hhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 79 PEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGH---LGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh---~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
+++.|..|.. ++..++.+.++.++.++.. +++ ..+.|.+|.++.-.|.. +++.+++.++..
T Consensus 39 ~~~~~~l~~~-~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~-------~~A~~~~~~~~~ 104 (119)
T TIGR02795 39 PNAHYWLGEA-YYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDK-------EKAKATLQQVIK 104 (119)
T ss_pred HHHHHHHHHH-HHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCCh-------HHHHHHHHHHHH
Confidence 3567776655 6667777888888888764 233 56788888888776654 666677666653
No 22
>PRK11189 lipoprotein NlpI; Provisional
Probab=65.14 E-value=25 Score=30.67 Aligned_cols=64 Identities=14% Similarity=0.084 Sum_probs=46.6
Q ss_pred hcCCccchHHHHHHHHhccCChHHHHHHHHHHH--hcCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 75 DSGNPEALYKQGVVEFFSYSNLEAGVAYLDIAT--KSGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 75 ~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA--~~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
+-.|+++.+..|. .+...++.+.++..+.+|. .+.+..|.+-+|++++-.|.. +++++.|.+..
T Consensus 94 ~P~~~~a~~~lg~-~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~-------~eA~~~~~~al 159 (296)
T PRK11189 94 RPDMADAYNYLGI-YLTQAGNFDAAYEAFDSVLELDPTYNYAYLNRGIALYYGGRY-------ELAQDDLLAFY 159 (296)
T ss_pred CCCCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-------HHHHHHHHHHH
Confidence 3467788888885 4566777788888888874 356788888888888877754 66777776655
No 23
>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=58.62 E-value=48 Score=21.53 Aligned_cols=50 Identities=12% Similarity=0.270 Sum_probs=39.4
Q ss_pred ccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhhh
Q 038912 92 SYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYRA 148 (199)
Q Consensus 92 ~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~~ 148 (199)
..++.+.++.+++++.. +++.++.|.+|.+++-.|.. +++.++|.++...
T Consensus 3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~-------~~A~~~l~~~~~~ 54 (68)
T PF14559_consen 3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQY-------DEAEELLERLLKQ 54 (68)
T ss_dssp HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-H-------HHHHHHHHCCHGG
T ss_pred hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCH-------HHHHHHHHHHHHH
Confidence 45666889999999654 46899999999999999964 8888888887753
No 24
>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]
Probab=57.93 E-value=44 Score=31.60 Aligned_cols=108 Identities=17% Similarity=0.158 Sum_probs=75.1
Q ss_pred HHHhcCCccchHHHHHHHHhccCChHHHHHHHHH--HHhcCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh--
Q 038912 72 KCRDSGNPEALYKQGVVEFFSYSNLEAGVAYLDI--ATKSGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR-- 147 (199)
Q Consensus 72 rC~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~--AA~~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~-- 147 (199)
+..-+-|..+||+.- ..|. .++..=.+ ...+++.-|+|=.|..++.-|.. +.+...|.++..
T Consensus 256 k~~~~lNlA~c~lKl-~~~~------~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~-------~~A~~df~ka~k~~ 321 (397)
T KOG0543|consen 256 KLACHLNLAACYLKL-KEYK------EAIESCNKVLELDPNNVKALYRRGQALLALGEY-------DLARDDFQKALKLE 321 (397)
T ss_pred HHHHhhHHHHHHHhh-hhHH------HHHHHHHHHHhcCCCchhHHHHHHHHHHhhccH-------HHHHHHHHHHHHhC
Confidence 345567888888853 2222 33333322 34578999999999999999965 778888887764
Q ss_pred -----hh-hHHHHHHHHHHHHH---hhhhhcc--CCCCCCCCCCCCCCCCCCCCCCC
Q 038912 148 -----AK-RLSQCRNKLQSITQ---TLWKNYY--LKPKLNKCPSRKNHGLKVGWPCE 193 (199)
Q Consensus 148 -----~r-~~~~~r~~ik~~~~---~~W~~~~--~~~~~~~C~~~~~cg~~~~~~~~ 193 (199)
.+ .+..|.++++.+.. .||.+.. ++.....|.+...-+...+|..-
T Consensus 322 P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~~~~~k~~s~~~~~~~~~~~~~ 378 (397)
T KOG0543|consen 322 PSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLAEESAKTKSEAALEDKPKEQEG 378 (397)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcccccccccccchhcccCccchhc
Confidence 23 88888888887764 5898876 44445778888555888887543
No 25
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=57.34 E-value=64 Score=28.30 Aligned_cols=60 Identities=23% Similarity=0.317 Sum_probs=32.5
Q ss_pred ccchHHHHHHHHhccCChHHHHHHHHHHHh--cC---ChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 79 PEALYKQGVVEFFSYSNLEAGVAYLDIATK--SG---HLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~g---h~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
|+|.|..|-. ||..++.+.++..++++.. +. ..+|+|-+|.++.-.|. .+++.+++.++.
T Consensus 180 ~~A~y~LG~~-y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~-------~~~A~~~~~~vi 244 (263)
T PRK10803 180 PNANYWLGQL-NYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGD-------TAKAKAVYQQVI 244 (263)
T ss_pred HHHHHHHHHH-HHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCC-------HHHHHHHHHHHH
Confidence 3566666643 3455666666666666652 12 35566666666655443 255555555554
No 26
>KOG4014 consensus Uncharacterized conserved protein (contains TPR repeat) [Function unknown]
Probab=52.43 E-value=70 Score=27.95 Aligned_cols=96 Identities=17% Similarity=0.262 Sum_probs=65.0
Q ss_pred HHHHHHHhcCCccchHHHHHHHHhccC----ChHHHHHHHHHHHhcCChhHHHHHHHHHH-hcCCCCCChhhHHHHHHHH
Q 038912 68 SFLEKCRDSGNPEALYKQGVVEFFSYS----NLEAGVAYLDIATKSGHLGASYILGVIFL-CKDDEDDDNESNQKGMQHL 142 (199)
Q Consensus 68 ~FlkrC~~aGNpeA~Y~~Gm~~~f~~~----~~~~Gl~lL~~AA~~gh~~A~Y~~~ml~~-c~G~~~~d~~~~~~g~~~~ 142 (199)
-|.+-|-+++.|..||--||.-+.--+ +...+++.+..|-+.-...|-.-+|+|+. ++-..+-|. .-+++.+++
T Consensus 57 v~K~nCden~y~kSCyKyG~y~~~GKgG~~~~l~~a~r~~~~aC~~n~~~aC~~~gLl~~~g~~~r~~dp-d~~Ka~~y~ 135 (248)
T KOG4014|consen 57 VFKKNCDENSYPKSCYKYGMYMLAGKGGDDASLSKAIRPMKIACDANIPQACRYLGLLHWNGEKDRKADP-DSEKAERYM 135 (248)
T ss_pred HHHhcccccCCcHHHHHhhhhhhcccCCCccCHHHHHHHHHHHhccCCHHHHhhhhhhhccCcCCccCCC-CcHHHHHHH
Confidence 355569999999999999998887654 44788899999998888888887888877 433332322 245677777
Q ss_pred HHHhhhhhHHHHHHHHHHHHHhhhhhcc
Q 038912 143 DKVYRAKRLSQCRNKLQSITQTLWKNYY 170 (199)
Q Consensus 143 ~~l~~~r~~~~~r~~ik~~~~~~W~~~~ 170 (199)
.+--.-...+.| |.-|.|+..+
T Consensus 136 traCdl~~~~aC------f~LS~m~~~g 157 (248)
T KOG4014|consen 136 TRACDLEDGEAC------FLLSTMYMGG 157 (248)
T ss_pred HHhccCCCchHH------HHHHHHHhcc
Confidence 654332233333 4456676665
No 27
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=50.97 E-value=60 Score=21.35 Aligned_cols=52 Identities=8% Similarity=0.118 Sum_probs=40.5
Q ss_pred HHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 89 EFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 89 ~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
.++..++.+.++..+.++.. +.+..+.+.+|.+++-.|.. +++++.|.+...
T Consensus 4 ~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~-------~~A~~~l~~~l~ 57 (73)
T PF13371_consen 4 IYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRY-------EEALEDLERALE 57 (73)
T ss_pred HHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccH-------HHHHHHHHHHHH
Confidence 35667777888888888654 45788888999999988865 788888887764
No 28
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=49.60 E-value=57 Score=32.06 Aligned_cols=49 Identities=14% Similarity=0.055 Sum_probs=21.5
Q ss_pred CCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcC
Q 038912 77 GNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKD 126 (199)
Q Consensus 77 GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G 126 (199)
+|+++.+..|.. +...++.+.++..+.+|.. +++..+.+.++-++.-.|
T Consensus 108 ~~~~a~~~la~~-l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g 158 (656)
T PRK15174 108 CQPEDVLLVASV-LLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMD 158 (656)
T ss_pred CChHHHHHHHHH-HHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCC
Confidence 444444444432 2333444455555555433 234444444444444444
No 29
>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=49.54 E-value=89 Score=21.89 Aligned_cols=60 Identities=15% Similarity=0.207 Sum_probs=43.9
Q ss_pred ccchHHHHHHHHhccCChHHHHHHHHHHHhc--CC---hhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 79 PEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GH---LGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh---~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
+++.|-.|. .++..++.+.++.++.++... ++ ..|.|.+|.+.+-.|.. +.+++++..+.
T Consensus 2 ~~~~~~~~~-~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-------~~A~~~~~~~~ 66 (119)
T TIGR02795 2 EEAYYDAAL-LVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKY-------ADAAKAFLAVV 66 (119)
T ss_pred cHHHHHHHH-HHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccH-------HHHHHHHHHHH
Confidence 345555554 456678889999999998743 22 46889999999988865 77777777765
No 30
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=47.21 E-value=45 Score=23.05 Aligned_cols=72 Identities=17% Similarity=0.295 Sum_probs=45.0
Q ss_pred chHHHHHHHhcCC--ccchHHHHH-HHHhccCChHHHHHHHHHH-HhcCChhHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038912 66 NYSFLEKCRDSGN--PEALYKQGV-VEFFSYSNLEAGVAYLDIA-TKSGHLGASYILGVIFLCKDDEDDDNESNQKGMQH 141 (199)
Q Consensus 66 ~~~FlkrC~~aGN--peA~Y~~Gm-~~~f~~~~~~~Gl~lL~~A-A~~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~ 141 (199)
+..++++.++... ++..|...+ .-+|..++-+.++..+.+. ...++....|.+|-.++-.|.. ++++++
T Consensus 8 Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~~~~~~~~~~~~~l~a~~~~~l~~y-------~eAi~~ 80 (84)
T PF12895_consen 8 AIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQKLKLDPSNPDIHYLLARCLLKLGKY-------EEAIKA 80 (84)
T ss_dssp HHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHCHTHHHCHHHHHHHHHHHHHHTT-H-------HHHHHH
T ss_pred HHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHhCCH-------HHHHHH
Confidence 3456666655543 234344322 3356666778888888763 2234678888888888888854 777777
Q ss_pred HHH
Q 038912 142 LDK 144 (199)
Q Consensus 142 ~~~ 144 (199)
|.+
T Consensus 81 l~~ 83 (84)
T PF12895_consen 81 LEK 83 (84)
T ss_dssp HHH
T ss_pred Hhc
Confidence 653
No 31
>KOG4014 consensus Uncharacterized conserved protein (contains TPR repeat) [Function unknown]
Probab=47.19 E-value=2e+02 Score=25.22 Aligned_cols=94 Identities=11% Similarity=0.026 Sum_probs=54.9
Q ss_pred hcchhHhhhccccccCC----CC-C--CcchHHHHHHHhcCCccchHHHHHHHHhcc-----------------------
Q 038912 44 TFDKYVLRQASIEKIPA----MP-W--HKNYSFLEKCRDSGNPEALYKQGVVEFFSY----------------------- 93 (199)
Q Consensus 44 ~~~~~Vl~~asl~~l~~----~~-w--~~~~~FlkrC~~aGNpeA~Y~~Gm~~~f~~----------------------- 93 (199)
.+++.--++++|-.... .. | ++..+|+.|-.+-+|-+|||.++-..+=..
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 44555555555443222 11 6 666899999999999999998876554330
Q ss_pred CChHHHHHHHHHHHhcCChhHH-HHHHHHHHhcCCCCCChhhHHHH
Q 038912 94 SNLEAGVAYLDIATKSGHLGAS-YILGVIFLCKDDEDDDNESNQKG 138 (199)
Q Consensus 94 ~~~~~Gl~lL~~AA~~gh~~A~-Y~~~ml~~c~G~~~~d~~~~~~g 138 (199)
.+++.++++--+|-.-+|..|- -+--|.-+++|.+ +|.+..++.
T Consensus 182 kDMdka~qfa~kACel~~~~aCAN~SrMyklGDGv~-Kde~~Aeky 226 (248)
T KOG4014|consen 182 KDMDKALQFAIKACELDIPQACANVSRMYKLGDGVP-KDEDQAEKY 226 (248)
T ss_pred HhHHHHHHHHHHHHhcCChHHHhhHHHHHHccCCCC-ccHHHHHHH
Confidence 2345566666666666654332 2223445577776 333333333
No 32
>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=45.73 E-value=82 Score=29.82 Aligned_cols=76 Identities=13% Similarity=0.132 Sum_probs=42.5
Q ss_pred CcchHHHHHHHhcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHH
Q 038912 64 HKNYSFLEKCRDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQH 141 (199)
Q Consensus 64 ~~~~~FlkrC~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~ 141 (199)
+.+...+++.++...........+..++.....+.++.++.++.. +.+....+.+|.+.+-.|.. ++++++
T Consensus 787 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~-------~~A~~~ 859 (899)
T TIGR02917 787 DKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKDPRALEYAEKALKLAPNIPAILDTLGWLLVEKGEA-------DRALPL 859 (899)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH-------HHHHHH
Confidence 334456666665543333333333333333333667777777643 34666777777777776654 566666
Q ss_pred HHHHh
Q 038912 142 LDKVY 146 (199)
Q Consensus 142 ~~~l~ 146 (199)
+.+..
T Consensus 860 ~~~a~ 864 (899)
T TIGR02917 860 LRKAV 864 (899)
T ss_pred HHHHH
Confidence 66554
No 33
>PRK10564 maltose regulon periplasmic protein; Provisional
Probab=45.37 E-value=28 Score=31.78 Aligned_cols=37 Identities=19% Similarity=0.344 Sum_probs=32.7
Q ss_pred ccchHHHHHHHHhccCChHHHHHHHHHHHhcCChhHH
Q 038912 79 PEALYKQGVVEFFSYSNLEAGVAYLDIATKSGHLGAS 115 (199)
Q Consensus 79 peA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~gh~~A~ 115 (199)
-|+.|...+......+|++.++.||.+|-.-|...|.
T Consensus 256 Te~Yy~~aI~~AVk~gDi~KAL~LldEAe~LG~~~Ar 292 (303)
T PRK10564 256 TESYFNQAIKQAVKKGDVDKALKLLDEAERLGSTSAR 292 (303)
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCchHH
Confidence 4678999999999999999999999999988865553
No 34
>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=42.36 E-value=1.5e+02 Score=22.59 Aligned_cols=46 Identities=13% Similarity=0.218 Sum_probs=20.7
Q ss_pred chHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCC
Q 038912 81 ALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDD 127 (199)
Q Consensus 81 A~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~ 127 (199)
+.+..|.. ++..++.+.+...+.++... .+..+.+.+|.+.+..|.
T Consensus 137 ~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~ 184 (234)
T TIGR02521 137 SLENAGLC-ALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQ 184 (234)
T ss_pred HHHHHHHH-HHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCC
Confidence 33444433 23444445555555554322 234455555555554443
No 35
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=42.35 E-value=1.1e+02 Score=32.03 Aligned_cols=75 Identities=12% Similarity=0.178 Sum_probs=55.4
Q ss_pred CcchHHHHHHH--hcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHH
Q 038912 64 HKNYSFLEKCR--DSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGM 139 (199)
Q Consensus 64 ~~~~~FlkrC~--~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~ 139 (199)
+.+...+++.+ +-.||.+.|..|. .++..++.+.++..++++.. +.+.++.|.+++++...|.. ++++
T Consensus 478 ~eA~~~~~~Al~~~P~~~~~~~~LA~-~~~~~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~-------~~Al 549 (1157)
T PRK11447 478 AQAAELQRQRLALDPGSVWLTYRLAQ-DLRQAGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRD-------RAAL 549 (1157)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHH-HHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCH-------HHHH
Confidence 33445555544 3467788888887 46788899999999999854 56889999999887777754 6677
Q ss_pred HHHHHHh
Q 038912 140 QHLDKVY 146 (199)
Q Consensus 140 ~~~~~l~ 146 (199)
+++.++.
T Consensus 550 ~~l~~l~ 556 (1157)
T PRK11447 550 AHLNTLP 556 (1157)
T ss_pred HHHHhCC
Confidence 7777654
No 36
>PRK15174 Vi polysaccharide export protein VexE; Provisional
Probab=41.05 E-value=1.3e+02 Score=29.48 Aligned_cols=28 Identities=7% Similarity=0.027 Sum_probs=12.4
Q ss_pred CCccchHHHHHHHHhccCChHHHHHHHHH
Q 038912 77 GNPEALYKQGVVEFFSYSNLEAGVAYLDI 105 (199)
Q Consensus 77 GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~ 105 (199)
+|+++.+..|-. +...++.+.++..+++
T Consensus 142 ~~~~a~~~la~~-l~~~g~~~eA~~~~~~ 169 (656)
T PRK15174 142 GNSQIFALHLRT-LVLMDKELQAISLART 169 (656)
T ss_pred CcHHHHHHHHHH-HHHCCChHHHHHHHHH
Confidence 444444444333 3444444555555544
No 37
>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=39.17 E-value=1e+02 Score=29.64 Aligned_cols=62 Identities=11% Similarity=0.170 Sum_probs=37.2
Q ss_pred CCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 77 GNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 77 GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
.|+++.|..|.. ++..++.+.++..+.+|.. +.+..+.+-+|.+++..|.. ++++.+|.+..
T Consensus 397 ~~~~~~~~lg~~-~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~-------~eA~~~~~~al 460 (615)
T TIGR00990 397 EDPDIYYHRAQL-HFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSI-------ASSMATFRRCK 460 (615)
T ss_pred CCHHHHHHHHHH-HHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCH-------HHHHHHHHHHH
Confidence 456666666654 4556666777777766643 23556666666666666643 55555555543
No 38
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=37.02 E-value=1.3e+02 Score=28.99 Aligned_cols=65 Identities=17% Similarity=0.200 Sum_probs=48.9
Q ss_pred HhcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChh---HHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 74 RDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLG---ASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 74 ~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~---A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
.+-.++++++.+|+.. |..++.+.++..+.+|.. +.+.+ |.|-+|..+...|.. ++++++|.+..
T Consensus 70 ~dP~~a~a~~NLG~AL-~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~-------dEAla~LrrAL 139 (453)
T PLN03098 70 ADVKTAEDAVNLGLSL-FSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEG-------KKAADCLRTAL 139 (453)
T ss_pred CCCCCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCH-------HHHHHHHHHHH
Confidence 4557889999999865 567888999999998654 34554 489999999988864 66666666544
No 39
>KOG0281 consensus Beta-TrCP (transducin repeats containing)/Slimb proteins [Function unknown]
Probab=36.76 E-value=26 Score=33.08 Aligned_cols=59 Identities=20% Similarity=0.309 Sum_probs=46.2
Q ss_pred CCccccCCCCC----hHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhhhccccccCCCC
Q 038912 1 MFRTRSIFSLP----DELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLRQASIEKIPAMP 62 (199)
Q Consensus 1 ~~~~~~~~~Lp----dDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~~asl~~l~~~~ 62 (199)
|.-+.++..|| |.+...|++-+ --.+|.+..+.||+..++-.|+...+.+=........
T Consensus 69 mLqrDFi~~lP~~gl~hi~e~ilsyl---d~~sLc~celv~k~W~r~l~dg~~WKkLie~~vr~ds 131 (499)
T KOG0281|consen 69 MLQRDFITALPEQGLDHIAENILSYL---DALSLCACELVCKEWKRVLSDGMLWKKLIERMVRTDS 131 (499)
T ss_pred HHHHHHHHhcccccHHHHHHHHHHhc---chhhhhHHHHHHHHHHHHhccchHHHHHHHHhcchHH
Confidence 44567899999 66666666666 4578999999999999999999999987766654443
No 40
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=35.95 E-value=83 Score=19.29 Aligned_cols=39 Identities=13% Similarity=-0.009 Sum_probs=25.9
Q ss_pred chHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHH
Q 038912 81 ALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGV 120 (199)
Q Consensus 81 A~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~m 120 (199)
+.+..| ..+...++.+.+...++++.. +.+.+|.+.+|-
T Consensus 3 ~~~~la-~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~ 43 (44)
T PF13428_consen 3 AWLALA-RAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ 43 (44)
T ss_pred HHHHHH-HHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence 334333 456677788888888888543 457777777663
No 41
>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=35.59 E-value=1.8e+02 Score=22.23 Aligned_cols=72 Identities=14% Similarity=0.115 Sum_probs=38.1
Q ss_pred hHHHHHHHhc--CCccchHHHHHHHHhccCChHHHHHHHHHHHhc----CChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 67 YSFLEKCRDS--GNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS----GHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 67 ~~FlkrC~~a--GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~----gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
...+++.++. .++.+.+..|.. ++..++.+.++..+.++... ....+.+.+|.+.+..|.. +++.+
T Consensus 85 ~~~~~~al~~~~~~~~~~~~~~~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-------~~A~~ 156 (234)
T TIGR02521 85 EDSFRRALTLNPNNGDVLNNYGTF-LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDF-------DKAEK 156 (234)
T ss_pred HHHHHHHHhhCCCCHHHHHHHHHH-HHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCH-------HHHHH
Confidence 3455554432 344444444433 34455566677777766542 2345566666666666643 55555
Q ss_pred HHHHHh
Q 038912 141 HLDKVY 146 (199)
Q Consensus 141 ~~~~l~ 146 (199)
++.+..
T Consensus 157 ~~~~~~ 162 (234)
T TIGR02521 157 YLTRAL 162 (234)
T ss_pred HHHHHH
Confidence 555554
No 42
>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=34.54 E-value=48 Score=20.22 Aligned_cols=25 Identities=20% Similarity=0.271 Sum_probs=17.0
Q ss_pred HHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 114 ASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 114 A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
|.+.+|++..+++. ++.++++....
T Consensus 2 A~lgLGl~~aGs~~--------~~~~~~L~~~l 26 (35)
T PF01851_consen 2 AILGLGLIYAGSGN--------EEVLDLLRPYL 26 (35)
T ss_dssp HHHHHHHHTTTT----------HHHHHHHHHHH
T ss_pred cHHHHHHHHcCCCC--------HHHHHHHHHHH
Confidence 78999999888885 45666666544
No 43
>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional
Probab=34.52 E-value=1.4e+02 Score=31.39 Aligned_cols=75 Identities=15% Similarity=0.043 Sum_probs=56.8
Q ss_pred cchHHHHHHH--hcCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 65 KNYSFLEKCR--DSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 65 ~~~~FlkrC~--~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
.+..++.+.+ +-+|+++.+..|+... ..++.+.++.++.+|.. +.+..+.|.+|+++...|.. +++.+
T Consensus 627 eA~~~l~~AL~l~Pd~~~a~~nLG~aL~-~~G~~eeAi~~l~~AL~l~P~~~~a~~nLA~al~~lGd~-------~eA~~ 698 (987)
T PRK09782 627 AAVSDLRAALELEPNNSNYQAALGYALW-DSGDIAQSREMLERAHKGLPDDPALIRQLAYVNQRLDDM-------AATQH 698 (987)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHHHHH-HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCH-------HHHHH
Confidence 3345566533 4567888888886654 45677999999999764 57899999999999999975 77888
Q ss_pred HHHHHhh
Q 038912 141 HLDKVYR 147 (199)
Q Consensus 141 ~~~~l~~ 147 (199)
++.+...
T Consensus 699 ~l~~Al~ 705 (987)
T PRK09782 699 YARLVID 705 (987)
T ss_pred HHHHHHh
Confidence 8887753
No 44
>PRK12370 invasion protein regulator; Provisional
Probab=34.45 E-value=1.5e+02 Score=28.38 Aligned_cols=28 Identities=18% Similarity=0.229 Sum_probs=12.9
Q ss_pred CccchHHHHHHHHhccCChHHHHHHHHHH
Q 038912 78 NPEALYKQGVVEFFSYSNLEAGVAYLDIA 106 (199)
Q Consensus 78 NpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~A 106 (199)
|++++|..|...+ ..++.+.|+.++.+|
T Consensus 371 ~~~a~~~lg~~l~-~~G~~~eAi~~~~~A 398 (553)
T PRK12370 371 SADIKYYYGWNLF-MAGQLEEALQTINEC 398 (553)
T ss_pred CHHHHHHHHHHHH-HCCCHHHHHHHHHHH
Confidence 3445555554433 234444455555554
No 45
>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A.
Probab=34.30 E-value=47 Score=18.33 Aligned_cols=27 Identities=15% Similarity=0.274 Sum_probs=19.1
Q ss_pred hHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 113 GASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 113 ~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
+|.|-+|+++.-.|. .++++++|.++.
T Consensus 1 ~a~~~~a~~~~~~g~-------~~~A~~~~~~~~ 27 (33)
T PF13174_consen 1 DALYRLARCYYKLGD-------YDEAIEYFQRLI 27 (33)
T ss_dssp HHHHHHHHHHHHHCH-------HHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHccC-------HHHHHHHHHHHH
Confidence 477888888887664 477777777664
No 46
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=33.22 E-value=1.6e+02 Score=22.72 Aligned_cols=71 Identities=11% Similarity=0.170 Sum_probs=52.4
Q ss_pred HHHHHHHhcCCccchHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHH
Q 038912 68 SFLEKCRDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKV 145 (199)
Q Consensus 68 ~FlkrC~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l 145 (199)
.-+.++++ =||+..|-.|... +..++.+.++..+.+|... .+..+.+.+|.++.-.|.. ++++..+.+.
T Consensus 14 ~~~~~al~-~~p~~~~~~g~~~-~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~-------~~A~~~y~~A 84 (144)
T PRK15359 14 DILKQLLS-VDPETVYASGYAS-WQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEY-------TTAINFYGHA 84 (144)
T ss_pred HHHHHHHH-cCHHHHHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhH-------HHHHHHHHHH
Confidence 34445443 3477777777654 6788888999999987654 5789999999999988864 7788888877
Q ss_pred hh
Q 038912 146 YR 147 (199)
Q Consensus 146 ~~ 147 (199)
..
T Consensus 85 l~ 86 (144)
T PRK15359 85 LM 86 (144)
T ss_pred Hh
Confidence 63
No 47
>PF11286 DUF3087: Protein of unknown function (DUF3087); InterPro: IPR021438 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=32.83 E-value=49 Score=27.66 Aligned_cols=36 Identities=22% Similarity=0.517 Sum_probs=28.2
Q ss_pred HHHHHhcCCccch-----HHHHHHHHhccCChHHHHHHHHH
Q 038912 70 LEKCRDSGNPEAL-----YKQGVVEFFSYSNLEAGVAYLDI 105 (199)
Q Consensus 70 lkrC~~aGNpeA~-----Y~~Gm~~~f~~~~~~~Gl~lL~~ 105 (199)
++.-++.|||+|. |..|++++|..++....+.-+.+
T Consensus 99 ik~aa~~~d~~Al~iL~FYy~g~~Q~~~LD~NTltl~~l~~ 139 (165)
T PF11286_consen 99 IKAAAEQGDPDALKILRFYYQGLRQVYQLDDNTLTLSDLEK 139 (165)
T ss_pred HHHHHHcCCHHHHHHHHHHHHhHHHHHHhcCCcccHHHHHH
Confidence 4458899999985 78899999999988666555544
No 48
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=31.76 E-value=2.6e+02 Score=22.99 Aligned_cols=66 Identities=11% Similarity=0.082 Sum_probs=49.4
Q ss_pred cCCccchHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHH-hcCCCCCChhhHHHHHHHHHHHhh
Q 038912 76 SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFL-CKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 76 aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~-c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
-+|+++.+..|. .+...++.+.++..+++|..- .+.++.+.+|.+++ -.|.. ..+++.+.|.+...
T Consensus 70 P~~~~~w~~Lg~-~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~-----~~~~A~~~l~~al~ 138 (198)
T PRK10370 70 PQNSEQWALLGE-YYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQH-----MTPQTREMIDKALA 138 (198)
T ss_pred CCCHHHHHHHHH-HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCC-----CcHHHHHHHHHHHH
Confidence 489999999985 455778889999999998763 47888888998764 55542 23677777777753
No 49
>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=31.27 E-value=2.1e+02 Score=25.13 Aligned_cols=61 Identities=20% Similarity=0.444 Sum_probs=35.5
Q ss_pred ChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhhcchhHhhhccccccCCCCCCcchHHHHHHHhcCCccchH
Q 038912 11 PDELLSEILARVGACSLDDLLNAGLSCKLFNEITFDKYVLRQASIEKIPAMPWHKNYSFLEKCRDSGNPEALY 83 (199)
Q Consensus 11 pdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~~~~~Vl~~asl~~l~~~~w~~~~~FlkrC~~aGNpeA~Y 83 (199)
|+.++-.++.-+.. +..+..+...|-|=-+..+=+..+..++ +...+|++|++.|+.+.++
T Consensus 139 ~~~~L~~v~~ll~~--f~~~l~Ivv~C~RKtE~~~W~~LF~~lg----------~P~dLf~~cl~~~~l~tAa 199 (258)
T PF07064_consen 139 PDALLPRVISLLQE--FPEYLEIVVNCARKTEVRYWPYLFDYLG----------SPRDLFEECLENGNLKTAA 199 (258)
T ss_pred hHHHHHHHHHHHHc--CcchHHHHHHHHHhhHHHHHHHHHHhcC----------CHHHHHHHHHHcCcHHHHH
Confidence 44455555444432 3445555555555555444444444443 3468999999999988554
No 50
>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=30.93 E-value=1.3e+02 Score=18.51 Aligned_cols=34 Identities=15% Similarity=0.257 Sum_probs=15.1
Q ss_pred cCChHHHHHHHHHHHhcC--ChhHHHHHHHHHHhcC
Q 038912 93 YSNLEAGVAYLDIATKSG--HLGASYILGVIFLCKD 126 (199)
Q Consensus 93 ~~~~~~Gl~lL~~AA~~g--h~~A~Y~~~ml~~c~G 126 (199)
.++.+.++..+.++.... +..+.+.+|.+.+-.|
T Consensus 13 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 48 (100)
T cd00189 13 LGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLG 48 (100)
T ss_pred HhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHH
Confidence 344455555555544321 2234444455444443
No 51
>PF12976 DUF3860: Domain of Unknown Function with PDB structure (DUF3860); InterPro: IPR024619 This protein family includes hypothetical protein (JCVI_PEP_1096688149193) whose crystal structure has been solved PDB:2OD5. The hypothetical protein is from an environmental metagenome (unidentified marine microbe).
Probab=28.92 E-value=24 Score=26.30 Aligned_cols=38 Identities=16% Similarity=-0.061 Sum_probs=28.5
Q ss_pred HHHHHHHHhcc-----CCHHHHHHHHHhcHhHHHhhcchhHhh
Q 038912 14 LLSEILARVGA-----CSLDDLLNAGLSCKLFNEITFDKYVLR 51 (199)
Q Consensus 14 Llv~I~~kVA~-----~s~~DL~~~~~tcKrf~~l~~~~~Vl~ 51 (199)
.-++|.+-|++ ++|.|+.|++-.-|.+..++.-+.-..
T Consensus 20 NT~EI~~~~~~~M~~~s~Pe~~~NiL~~D~~I~ri~T~rk~G~ 62 (92)
T PF12976_consen 20 NTIEISAWLASQMDPNSCPEDVTNILEADESIVRIGTVRKSGM 62 (92)
T ss_pred cHHHHHHHHHhccCCCCCHHHHHHHHhccccceeeeeeccccc
Confidence 35788899987 589999999988777777665544333
No 52
>PRK11189 lipoprotein NlpI; Provisional
Probab=28.91 E-value=2e+02 Score=25.01 Aligned_cols=62 Identities=16% Similarity=0.173 Sum_probs=48.4
Q ss_pred CCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 77 GNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 77 GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
+++.+.|.+|+. +...++.+.++..+.+|.. +.+..|.+.+|.++...|.. +++++.|.+..
T Consensus 62 ~~a~~~~~~g~~-~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~-------~~A~~~~~~Al 125 (296)
T PRK11189 62 ERAQLHYERGVL-YDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNF-------DAAYEAFDSVL 125 (296)
T ss_pred hhHHHHHHHHHH-HHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCH-------HHHHHHHHHHH
Confidence 446678889985 6677888899998888764 45789999999999998865 66666666664
No 53
>PF13013 F-box-like_2: F-box-like domain
Probab=28.73 E-value=78 Score=24.53 Aligned_cols=35 Identities=26% Similarity=0.396 Sum_probs=24.3
Q ss_pred cCCCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHh
Q 038912 6 SIFSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEI 43 (199)
Q Consensus 6 ~~~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l 43 (199)
.+..||+||+..|...- ...++..+..+|+.++..
T Consensus 21 tl~DLP~ELl~~I~~~C---~~~~l~~l~~~~~~~r~~ 55 (109)
T PF13013_consen 21 TLLDLPWELLQLIFDYC---NDPILLALSRTCRAYRSW 55 (109)
T ss_pred chhhChHHHHHHHHhhc---CcHHHHHHHHHHHHHHHH
Confidence 46779999999999876 345555666666644443
No 54
>PF12688 TPR_5: Tetratrico peptide repeat
Probab=28.27 E-value=2.8e+02 Score=21.40 Aligned_cols=88 Identities=10% Similarity=0.193 Sum_probs=61.7
Q ss_pred chHHHHHHHhcCCccchHHHHHHH----HhccCChHHHHHHHHHHHhc--C---ChhHHHHHHHHHHhcCCCCCChhhHH
Q 038912 66 NYSFLEKCRDSGNPEALYKQGVVE----FFSYSNLEAGVAYLDIATKS--G---HLGASYILGVIFLCKDDEDDDNESNQ 136 (199)
Q Consensus 66 ~~~FlkrC~~aGNpeA~Y~~Gm~~----~f~~~~~~~Gl~lL~~AA~~--g---h~~A~Y~~~ml~~c~G~~~~d~~~~~ 136 (199)
+.++..+-.+.|=....-.+..+. +-+.+..+.++.+|.++... + +....++++|.+.-.|.. +
T Consensus 20 Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~gr~-------~ 92 (120)
T PF12688_consen 20 AIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNLGRP-------K 92 (120)
T ss_pred HHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHCCCH-------H
Confidence 357888888888666654444443 33667779999999998754 3 568899999999999975 7
Q ss_pred HHHHHHHHHhhhhhHHHHHHHHHHH
Q 038912 137 KGMQHLDKVYRAKRLSQCRNKLQSI 161 (199)
Q Consensus 137 ~g~~~~~~l~~~r~~~~~r~~ik~~ 161 (199)
++++.+-.... ....++++-|..|
T Consensus 93 eAl~~~l~~la-~~~~~y~ra~~~y 116 (120)
T PF12688_consen 93 EALEWLLEALA-ETLPRYRRAIRFY 116 (120)
T ss_pred HHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 77777755443 2333777777654
No 55
>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=28.16 E-value=2.4e+02 Score=22.88 Aligned_cols=38 Identities=11% Similarity=0.122 Sum_probs=16.5
Q ss_pred HhccCChHHHHHHHHHHHhc--CC---hhHHHHHHHHHHhcCC
Q 038912 90 FFSYSNLEAGVAYLDIATKS--GH---LGASYILGVIFLCKDD 127 (199)
Q Consensus 90 ~f~~~~~~~Gl~lL~~AA~~--gh---~~A~Y~~~ml~~c~G~ 127 (199)
++..++-+.++..+.++... .+ ..|.|.+|.+++-.|.
T Consensus 43 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~ 85 (235)
T TIGR03302 43 ALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGD 85 (235)
T ss_pred HHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCC
Confidence 34444445555555544321 11 1344555555554443
No 56
>CHL00033 ycf3 photosystem I assembly protein Ycf3
Probab=25.54 E-value=3.2e+02 Score=21.18 Aligned_cols=50 Identities=12% Similarity=0.067 Sum_probs=24.8
Q ss_pred HHhccCChHHHHHHHHHHHhc--CC---hhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHH
Q 038912 89 EFFSYSNLEAGVAYLDIATKS--GH---LGASYILGVIFLCKDDEDDDNESNQKGMQHLDKV 145 (199)
Q Consensus 89 ~~f~~~~~~~Gl~lL~~AA~~--gh---~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l 145 (199)
.++..++.+.++.++.+|..- .+ ..+.+.+|++..-.|.. +++++++.+.
T Consensus 44 ~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~-------~eA~~~~~~A 98 (168)
T CHL00033 44 SAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEH-------TKALEYYFQA 98 (168)
T ss_pred HHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCH-------HHHHHHHHHH
Confidence 344445556666666665321 21 23555566666655543 4455544443
No 57
>PRK10049 pgaA outer membrane protein PgaA; Provisional
Probab=24.73 E-value=3.6e+02 Score=27.01 Aligned_cols=74 Identities=4% Similarity=0.032 Sum_probs=37.1
Q ss_pred CcchHHHHHHHh--cCCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHH
Q 038912 64 HKNYSFLEKCRD--SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGM 139 (199)
Q Consensus 64 ~~~~~FlkrC~~--aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~ 139 (199)
+.+..++.+.++ -+|+++.+..++.. ...++.+.++.+|+++.. +.+.. .+.+|.++...|.. ++++
T Consensus 66 ~~A~~~~~~al~~~P~~~~a~~~la~~l-~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~-------~~Al 136 (765)
T PRK10049 66 QNSLTLWQKALSLEPQNDDYQRGLILTL-ADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRH-------WDEL 136 (765)
T ss_pred HHHHHHHHHHHHhCCCCHHHHHHHHHHH-HHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCH-------HHHH
Confidence 333444444332 35555555444433 344555666666666543 23444 56666666655532 5555
Q ss_pred HHHHHHh
Q 038912 140 QHLDKVY 146 (199)
Q Consensus 140 ~~~~~l~ 146 (199)
+.+.+..
T Consensus 137 ~~l~~al 143 (765)
T PRK10049 137 RAMTQAL 143 (765)
T ss_pred HHHHHHH
Confidence 5555444
No 58
>PF08321 PPP5: PPP5 TPR repeat region; InterPro: IPR013235 This domain is specific to the PPP5 subfamily of serine/threonine phosphatases.; GO: 0004722 protein serine/threonine phosphatase activity, 0046872 metal ion binding; PDB: 3ICF_B 3H60_B 3H63_A 3H66_A 3H62_B 1A17_A 1S95_B 3H69_A 3H68_D 3H64_D ....
Probab=24.35 E-value=86 Score=23.56 Aligned_cols=54 Identities=13% Similarity=0.262 Sum_probs=30.0
Q ss_pred HhhhccccccCCCC-CCcchHHHHHHHhcCCccchHHHHHHHHhccCChHHHHHHHHHHHhcCChhHHHHHHHHHH
Q 038912 49 VLRQASIEKIPAMP-WHKNYSFLEKCRDSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKSGHLGASYILGVIFL 123 (199)
Q Consensus 49 Vl~~asl~~l~~~~-w~~~~~FlkrC~~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~gh~~A~Y~~~ml~~ 123 (199)
+....+++.+.+.+ +++.+ ++.++++.-|+..|+..|.. .+.-+..|++.||+-
T Consensus 27 ~~e~~d~~~i~Ve~sY~GP~------l~~~~it~efv~~mie~FK~---------------~K~Lhkkyv~~Il~~ 81 (95)
T PF08321_consen 27 VSESIDLESIDVEDSYDGPR------LEDEPITLEFVKAMIEWFKN---------------QKKLHKKYVYQILLE 81 (95)
T ss_dssp TTTS-TTSTT---SS--SS--------BTTB--HHHHHHHHHHHHC---------------T----HHHHHHHHHH
T ss_pred HHHhcCccceecCCCCCCCC------CCCCCCCHHHHHHHHHHHHh---------------CCCccHHHHHHHHHH
Confidence 44455666666665 44433 23478999999999999997 346778999998853
No 59
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=23.98 E-value=3e+02 Score=23.94 Aligned_cols=64 Identities=13% Similarity=0.195 Sum_probs=0.0
Q ss_pred cCCccchHHHHHHHHhccCChHHHHHHHHHHHhcC--ChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 76 SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKSG--HLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 76 aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~g--h~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
++-....|+.|+. +...++.+.++.++.++.... ..++.+.+|.+.+-.|.. +++++++.++..
T Consensus 32 ~~~~~~~y~~g~~-~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~-------~~A~~~~~~~l~ 97 (389)
T PRK11788 32 SNRLSRDYFKGLN-FLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEV-------DRAIRIHQNLLS 97 (389)
T ss_pred hhhccHHHHHHHH-HHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcH-------HHHHHHHHHHhc
No 60
>KOG1126 consensus DNA-binding cell division cycle control protein [Cell cycle control, cell division, chromosome partitioning]
Probab=23.01 E-value=5.4e+02 Score=26.01 Aligned_cols=101 Identities=14% Similarity=0.100 Sum_probs=63.4
Q ss_pred hHHHHHHHhcCCccchHHHH--HHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHH
Q 038912 67 YSFLEKCRDSGNPEALYKQG--VVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHL 142 (199)
Q Consensus 67 ~~FlkrC~~aGNpeA~Y~~G--m~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~ 142 (199)
.-||++.++- ||.-.-+.. ++.+...+..+.++.++.+|.. +-.....|=.|-|+++.+.. +++++.|
T Consensus 509 e~~fqkA~~I-NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~il~~~~~~-------~eal~~L 580 (638)
T KOG1126|consen 509 EFHFQKAVEI-NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRASILFSLGRY-------VEALQEL 580 (638)
T ss_pred HHHHHhhhcC-CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHHHHHhhcch-------HHHHHHH
Confidence 3456665554 443322222 2233445566999999999874 34678899999999999975 8999999
Q ss_pred HHHhh------------hhhHHHHHHHHHHHHHhhhhhccCCCCCC
Q 038912 143 DKVYR------------AKRLSQCRNKLQSITQTLWKNYYLKPKLN 176 (199)
Q Consensus 143 ~~l~~------------~r~~~~~r~~ik~~~~~~W~~~~~~~~~~ 176 (199)
+.|++ .+...+.+..-.....=.|..+ |.|.+.
T Consensus 581 EeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~-ldpkg~ 625 (638)
T KOG1126|consen 581 EELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALD-LDPKGA 625 (638)
T ss_pred HHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhc-CCCccc
Confidence 99985 1244444433333333457665 555543
No 61
>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]
Probab=22.68 E-value=2.2e+02 Score=29.32 Aligned_cols=78 Identities=12% Similarity=0.181 Sum_probs=56.1
Q ss_pred HHHHHHH--hcCCccchHHHHHHHHhccCChHHHHHHHHHHHhc---CChhHHHHHHHHHHhcCCCCCChhhHHHHHHHH
Q 038912 68 SFLEKCR--DSGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS---GHLGASYILGVIFLCKDDEDDDNESNQKGMQHL 142 (199)
Q Consensus 68 ~FlkrC~--~aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~---gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~ 142 (199)
.=+.+|+ +..||.++|..+|. |--.++..+++...++|-.- .|..++..+|+++=|++..+.-.+...-.++.+
T Consensus 465 qale~av~~d~~dp~~if~lalq-~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~ 543 (799)
T KOG4162|consen 465 QALEEAVQFDPTDPLVIFYLALQ-YAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF 543 (799)
T ss_pred HHHHHHHhcCCCCchHHHHHHHH-HHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh
Confidence 4566774 78999999999985 44456778999999886433 489999999999999998744444444445555
Q ss_pred HHHh
Q 038912 143 DKVY 146 (199)
Q Consensus 143 ~~l~ 146 (199)
..++
T Consensus 544 ~~N~ 547 (799)
T KOG4162|consen 544 GDNH 547 (799)
T ss_pred hhhh
Confidence 5443
No 62
>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=22.60 E-value=3.5e+02 Score=24.14 Aligned_cols=62 Identities=19% Similarity=0.252 Sum_probs=48.4
Q ss_pred CccchHHHHHHHHhccCChHHHHHHHHHHHhc-C----ChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 78 NPEALYKQGVVEFFSYSNLEAGVAYLDIATKS-G----HLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 78 NpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~-g----h~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
-|+|.|-+| .-+|..++.+++.....++... + -.+|++-+|+++.-.|.. +++-.+|.+|..
T Consensus 177 ~~nA~yWLG-e~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~-------d~A~atl~qv~k 243 (262)
T COG1729 177 TPNAYYWLG-ESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNT-------DEACATLQQVIK 243 (262)
T ss_pred cchhHHHHH-HHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCH-------HHHHHHHHHHHH
Confidence 378899998 5677888888888877777643 1 258999999999988875 778888888864
No 63
>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=22.50 E-value=3.1e+02 Score=19.90 Aligned_cols=62 Identities=5% Similarity=0.040 Sum_probs=45.5
Q ss_pred CCccchHHHHHHHHhccCChHHHHHHHHHHHh--cCChhHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 77 GNPEALYKQGVVEFFSYSNLEAGVAYLDIATK--SGHLGASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 77 GNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~--~gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
+|+++.+..|.. ++..++.+.+++.+.++.. +.+..+.+.+|.+++-.|.. +++.+++.+..
T Consensus 15 ~~~~~~~~~a~~-~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~-------~~A~~~~~~~~ 78 (135)
T TIGR02552 15 EQLEQIYALAYN-LYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEY-------EEAIDAYALAA 78 (135)
T ss_pred hhHHHHHHHHHH-HHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHH-------HHHHHHHHHHH
Confidence 356666666654 5567788999999999754 44678999999998877754 67777777664
No 64
>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=22.24 E-value=3.8e+02 Score=25.33 Aligned_cols=72 Identities=10% Similarity=0.101 Sum_probs=44.1
Q ss_pred cchHHHHHHHh--cCCccchHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcCCCCCChhhHHHHHH
Q 038912 65 KNYSFLEKCRD--SGNPEALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKDDEDDDNESNQKGMQ 140 (199)
Q Consensus 65 ~~~~FlkrC~~--aGNpeA~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G~~~~d~~~~~~g~~ 140 (199)
.+...+.+.++ ..|+++.+..|. .+...++.+.++.++.++... .+..+.+.++.+..-.|. .++++
T Consensus 754 ~A~~~~~~~l~~~~~~~~~~~~la~-~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~--------~~A~~ 824 (899)
T TIGR02917 754 EAVKTLEAWLKTHPNDAVLRTALAE-LYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD--------PRALE 824 (899)
T ss_pred HHHHHHHHHHHhCCCCHHHHHHHHH-HHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc--------HHHHH
Confidence 33445555443 456666666663 455678889999999987643 455666666666665553 33555
Q ss_pred HHHHH
Q 038912 141 HLDKV 145 (199)
Q Consensus 141 ~~~~l 145 (199)
++.+.
T Consensus 825 ~~~~~ 829 (899)
T TIGR02917 825 YAEKA 829 (899)
T ss_pred HHHHH
Confidence 55554
No 65
>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=20.97 E-value=2e+02 Score=17.69 Aligned_cols=31 Identities=19% Similarity=0.424 Sum_probs=23.3
Q ss_pred hHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHhh
Q 038912 113 GASYILGVIFLCKDDEDDDNESNQKGMQHLDKVYR 147 (199)
Q Consensus 113 ~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~~ 147 (199)
.+.|-||--++.|... +.-++|+.+|..+..
T Consensus 2 qt~FnyAw~Lv~S~~~----~d~~~Gi~lLe~l~~ 32 (35)
T PF14852_consen 2 QTQFNYAWGLVKSNNR----EDQQEGIALLEELYR 32 (35)
T ss_dssp HHHHHHHHHHHHSSSH----HHHHHHHHHHHHHCC
T ss_pred cchhHHHHHHhcCCCH----HHHHHHHHHHHHHHh
Confidence 3567777777888764 677999999987753
No 66
>KOG1379 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=20.96 E-value=76 Score=29.32 Aligned_cols=37 Identities=19% Similarity=0.215 Sum_probs=27.7
Q ss_pred ccCCCCChHHHHHHHHHhccCCHHHHHHHHHhcHhHHHhh
Q 038912 5 RSIFSLPDELLSEILARVGACSLDDLLNAGLSCKLFNEIT 44 (199)
Q Consensus 5 ~~~~~LpdDLlv~I~~kVA~~s~~DL~~~~~tcKrf~~l~ 44 (199)
.-||.||++.++.|++.+... .-..++.++.++.+.+
T Consensus 255 GlfDNl~e~~Il~il~~~~~~---~~~~lq~~A~~ia~~A 291 (330)
T KOG1379|consen 255 GLFDNLPEKEILSILKGLDAR---GNLDLQVTAQKIAEKA 291 (330)
T ss_pred cccccccHHHHHHHHHHhhcc---ccccHHHHHHHHHHHH
Confidence 468999999999999999885 4445566666665544
No 67
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=20.91 E-value=4.1e+02 Score=20.74 Aligned_cols=45 Identities=20% Similarity=0.284 Sum_probs=20.6
Q ss_pred chHHHHHHHHhccCChHHHHHHHHHHHhc--CChhHHHHHHHHHHhcC
Q 038912 81 ALYKQGVVEFFSYSNLEAGVAYLDIATKS--GHLGASYILGVIFLCKD 126 (199)
Q Consensus 81 A~Y~~Gm~~~f~~~~~~~Gl~lL~~AA~~--gh~~A~Y~~~ml~~c~G 126 (199)
+.+..|... +..++.+.++..+.+|... .+..+.+.+|.++.-.|
T Consensus 74 ~~~~la~~~-~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g 120 (172)
T PRK02603 74 ILYNMGIIY-ASNGEHDKALEYYHQALELNPKQPSALNNIAVIYHKRG 120 (172)
T ss_pred HHHHHHHHH-HHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcC
Confidence 344444332 2344445555555555432 23444445555544444
No 68
>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=20.75 E-value=1.7e+02 Score=16.10 Aligned_cols=26 Identities=19% Similarity=0.351 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHH
Q 038912 113 GASYILGVIFLCKDDEDDDNESNQKGMQHLDKV 145 (199)
Q Consensus 113 ~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l 145 (199)
++.|-+|.+.+-.|.. ++++++|.+.
T Consensus 2 ~~~~~lg~~~~~~~~~-------~~A~~~~~~a 27 (34)
T PF07719_consen 2 EAWYYLGQAYYQLGNY-------EEAIEYFEKA 27 (34)
T ss_dssp HHHHHHHHHHHHTT-H-------HHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCH-------HHHHHHHHHH
Confidence 4556666666666643 5555555443
No 69
>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=20.20 E-value=1.8e+02 Score=16.25 Aligned_cols=27 Identities=19% Similarity=0.327 Sum_probs=16.5
Q ss_pred hHHHHHHHHHHhcCCCCCChhhHHHHHHHHHHHh
Q 038912 113 GASYILGVIFLCKDDEDDDNESNQKGMQHLDKVY 146 (199)
Q Consensus 113 ~A~Y~~~ml~~c~G~~~~d~~~~~~g~~~~~~l~ 146 (199)
.+.|-+|.+++..|.. +++++++.+..
T Consensus 2 ~~~~~~g~~~~~~~~~-------~~A~~~~~~al 28 (34)
T PF00515_consen 2 EAYYNLGNAYFQLGDY-------EEALEYYQRAL 28 (34)
T ss_dssp HHHHHHHHHHHHTT-H-------HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhCCc-------hHHHHHHHHHH
Confidence 4566777777777743 66666665543
Done!