Query 028535
Match_columns 207
No_of_seqs 26 out of 28
Neff 3.3
Searched_HMMs 46136
Date Fri Mar 29 13:01:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028535.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028535hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1128 Uncharacterized conser 99.5 1.4E-13 3.1E-18 135.7 9.2 159 2-196 613-776 (777)
2 PF13428 TPR_14: Tetratricopep 92.8 0.2 4.3E-06 32.1 3.8 31 94-124 1-31 (44)
3 PF07719 TPR_2: Tetratricopept 91.1 0.51 1.1E-05 27.5 3.9 29 94-122 1-29 (34)
4 PF13432 TPR_16: Tetratricopep 85.6 3 6.5E-05 27.6 5.3 41 82-122 18-59 (65)
5 PRK10370 formate-dependent nit 83.3 4.3 9.3E-05 33.9 6.4 49 74-122 53-101 (198)
6 PF13181 TPR_8: Tetratricopept 82.8 3.2 6.8E-05 24.3 4.0 29 94-122 1-29 (34)
7 PF13429 TPR_15: Tetratricopep 80.6 21 0.00045 30.2 9.6 50 74-124 127-176 (280)
8 PF14561 TPR_20: Tetratricopep 79.8 8.4 0.00018 29.0 6.3 54 80-135 8-61 (90)
9 PF00515 TPR_1: Tetratricopept 77.1 6 0.00013 23.2 3.9 29 94-122 1-29 (34)
10 PRK10803 tol-pal system protei 76.3 50 0.0011 29.3 11.1 95 76-189 162-256 (263)
11 PRK10866 outer membrane biogen 75.6 53 0.0011 28.5 11.6 124 72-202 47-176 (243)
12 PF11817 Foie-gras_1: Foie gra 75.4 37 0.0008 29.3 9.8 58 74-131 155-215 (247)
13 PF14559 TPR_19: Tetratricopep 73.1 11 0.00024 24.8 4.9 36 89-124 20-55 (68)
14 PF12862 Apc5: Anaphase-promot 70.5 40 0.00087 24.8 8.8 83 105-197 9-91 (94)
15 smart00028 TPR Tetratricopepti 66.6 12 0.00027 19.0 3.3 29 94-122 1-29 (34)
16 PF13371 TPR_9: Tetratricopept 64.7 19 0.00041 24.0 4.7 46 74-122 12-57 (73)
17 PF05843 Suf: Suppressor of fo 63.8 23 0.0005 31.0 6.2 69 77-161 56-124 (280)
18 cd00189 TPR Tetratricopeptide 63.8 32 0.00068 21.1 9.1 32 93-124 33-64 (100)
19 PF13414 TPR_11: TPR repeat; P 59.9 15 0.00033 24.3 3.5 65 93-175 2-66 (69)
20 PF13176 TPR_7: Tetratricopept 57.2 20 0.00043 22.0 3.4 25 97-121 2-26 (36)
21 smart00386 HAT HAT (Half-A-TPR 56.7 18 0.0004 20.0 3.0 23 83-105 9-32 (33)
22 PF07794 DUF1633: Protein of u 55.0 42 0.00091 34.2 7.0 106 94-205 604-726 (790)
23 cd00189 TPR Tetratricopeptide 54.7 40 0.00087 20.6 4.6 29 94-122 68-96 (100)
24 PF13431 TPR_17: Tetratricopep 54.3 14 0.00031 22.8 2.5 26 89-114 8-33 (34)
25 PF09976 TPR_21: Tetratricopep 51.2 23 0.0005 27.3 3.7 36 85-120 109-144 (145)
26 COG5107 RNA14 Pre-mRNA 3'-end 47.2 2.4E+02 0.0053 28.8 10.7 127 72-205 91-244 (660)
27 PF14938 SNAP: Soluble NSF att 46.9 1.9E+02 0.0042 25.0 12.6 93 94-198 155-247 (282)
28 PF09295 ChAPs: ChAPs (Chs5p-A 46.6 83 0.0018 30.0 7.3 51 90-152 230-280 (395)
29 PF13414 TPR_11: TPR repeat; P 46.3 83 0.0018 20.6 6.2 46 76-121 19-65 (69)
30 PRK02603 photosystem I assembl 45.9 1.5E+02 0.0032 23.4 8.5 30 94-123 72-101 (172)
31 TIGR02521 type_IV_pilW type IV 45.1 1.3E+02 0.0028 22.6 8.1 30 94-123 65-94 (234)
32 PF13374 TPR_10: Tetratricopep 43.8 59 0.0013 19.0 4.0 32 94-125 2-33 (42)
33 PF09976 TPR_21: Tetratricopep 43.8 1.3E+02 0.0027 23.2 6.8 68 76-152 30-97 (145)
34 PRK09634 nusB transcription an 42.0 66 0.0014 28.3 5.5 38 154-191 64-105 (207)
35 PLN03088 SGT1, suppressor of 41.8 2.7E+02 0.0059 25.3 11.0 82 74-177 19-100 (356)
36 PF05635 23S_rRNA_IVP: 23S rRN 41.5 1.1E+02 0.0024 23.1 6.0 53 128-201 56-108 (110)
37 TIGR02552 LcrH_SycD type III s 40.0 1.5E+02 0.0032 21.7 9.8 39 84-122 40-79 (135)
38 KOG2047 mRNA splicing factor [ 38.9 2E+02 0.0043 30.4 9.0 75 94-170 248-323 (835)
39 TIGR03504 FimV_Cterm FimV C-te 38.6 36 0.00077 23.0 2.6 27 143-176 2-28 (44)
40 PF13424 TPR_12: Tetratricopep 38.5 1.2E+02 0.0027 20.4 9.1 72 94-177 5-76 (78)
41 PF08311 Mad3_BUB1_I: Mad3/BUB 38.1 85 0.0018 24.8 5.1 39 82-120 84-125 (126)
42 KOG2396 HAT (Half-A-TPR) repea 36.7 58 0.0013 32.9 4.8 58 79-136 123-183 (568)
43 TIGR02552 LcrH_SycD type III s 34.9 1.8E+02 0.0039 21.2 7.2 39 85-123 75-114 (135)
44 COG1704 LemA Uncharacterized c 34.8 59 0.0013 28.5 4.0 32 170-201 101-135 (185)
45 TIGR00990 3a0801s09 mitochondr 34.0 2.6E+02 0.0057 26.8 8.6 34 90-123 395-428 (615)
46 PF13429 TPR_15: Tetratricopep 33.6 2.1E+02 0.0045 24.1 7.1 30 93-122 213-242 (280)
47 KOG1914 mRNA cleavage and poly 31.7 1.1E+02 0.0024 31.5 5.8 68 69-143 65-144 (656)
48 PF04048 Sec8_exocyst: Sec8 ex 31.3 2.1E+02 0.0045 23.0 6.4 45 70-115 42-86 (142)
49 PF08919 F_actin_bind: F-actin 30.9 2.8E+02 0.0061 22.3 8.1 60 141-201 42-109 (110)
50 PRK11447 cellulose synthase su 30.5 6E+02 0.013 26.9 11.1 37 89-125 298-334 (1157)
51 PF04011 LemA: LemA family; I 30.3 3.1E+02 0.0068 22.6 8.0 75 118-201 54-135 (186)
52 PF06013 WXG100: Proteins of 1 29.5 1.8E+02 0.0038 19.5 6.8 59 94-153 7-70 (86)
53 PRK12370 invasion protein regu 29.5 5E+02 0.011 24.9 9.6 93 82-195 427-522 (553)
54 COG4842 Uncharacterized protei 29.4 1.8E+02 0.0038 22.1 5.4 54 101-155 17-75 (97)
55 PRK12275 hypothetical protein; 29.3 2.6E+02 0.0056 21.4 7.3 25 179-203 87-111 (116)
56 PF03704 BTAD: Bacterial trans 28.5 2.6E+02 0.0057 21.1 7.4 74 97-186 65-138 (146)
57 KOG3617 WD40 and TPR repeat-co 27.7 4.6E+02 0.01 29.0 9.6 116 72-201 1143-1298(1416)
58 cd07638 BAR_ACAP2 The Bin/Amph 27.6 3.4E+02 0.0074 23.7 7.5 63 130-198 8-75 (200)
59 PF01322 Cytochrom_C_2: Cytoch 27.2 1.3E+02 0.0028 23.0 4.5 47 130-177 71-117 (122)
60 COG4235 Cytochrome c biogenesi 27.1 1.6E+02 0.0035 27.3 5.7 47 76-122 138-184 (287)
61 TIGR02521 type_IV_pilW type IV 26.0 2.9E+02 0.0062 20.7 9.8 69 92-177 97-165 (234)
62 PF12026 DUF3513: Domain of un 26.0 3.2E+02 0.007 24.3 7.1 97 102-202 95-204 (210)
63 PRK10370 formate-dependent nit 24.9 1.8E+02 0.0039 24.2 5.2 31 92-122 105-138 (198)
64 TIGR01093 aroD 3-dehydroquinat 24.9 1.1E+02 0.0023 26.1 3.9 20 179-198 127-146 (228)
65 COG4047 Uncharacterized protei 24.8 5E+02 0.011 23.8 8.2 93 104-201 33-137 (243)
66 PF13424 TPR_12: Tetratricopep 24.8 1.2E+02 0.0026 20.4 3.5 30 94-123 46-75 (78)
67 PF12895 Apc3: Anaphase-promot 24.3 1.3E+02 0.0029 20.8 3.7 44 75-119 7-50 (84)
68 PF12895 Apc3: Anaphase-promot 24.2 2.5E+02 0.0054 19.4 6.4 28 92-119 56-83 (84)
69 PF11333 DUF3135: Protein of u 23.7 1.4E+02 0.003 22.8 3.9 44 130-177 14-57 (83)
70 PF08938 HBS1_N: HBS1 N-termin 23.4 25 0.00054 25.8 -0.2 22 183-204 22-43 (79)
71 PF01452 Rota_NSP4: Rotavirus 23.3 56 0.0012 28.4 1.9 38 98-137 125-167 (173)
72 PRK15359 type III secretion sy 23.2 3.6E+02 0.0079 21.0 6.4 51 72-122 70-120 (144)
73 PRK11189 lipoprotein NlpI; Pro 22.6 2.6E+02 0.0056 24.4 5.9 34 89-122 93-126 (296)
74 PRK11447 cellulose synthase su 22.6 3E+02 0.0065 29.0 7.3 33 90-122 599-631 (1157)
75 TIGR02996 rpt_mate_G_obs repea 22.4 1.4E+02 0.0031 20.5 3.4 32 82-113 4-35 (42)
76 PF10300 DUF3808: Protein of u 21.4 5.5E+02 0.012 24.6 8.3 47 76-122 248-295 (468)
77 PF10456 BAR_3_WASP_bdg: WASP- 21.3 2.9E+02 0.0063 24.7 6.0 69 134-204 77-148 (237)
78 PF05292 MCD: Malonyl-CoA deca 21.0 1.7E+02 0.0037 28.1 4.7 55 117-172 269-323 (354)
79 PF04878 Baculo_p48: Baculovir 20.1 2.8E+02 0.006 27.0 5.9 48 142-191 277-329 (374)
No 1
>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]
Probab=99.47 E-value=1.4e-13 Score=135.69 Aligned_cols=159 Identities=31% Similarity=0.384 Sum_probs=127.7
Q ss_pred ceecCCCccccHHHHHHHHHHHhcccccccccccccccCCCcCCCCcCCCCCcccccCCCccccccccchhhhHHHHHHH
Q 028535 2 VLNMTNNKRIDTVLLERIVLDMEGRTSIIESESCRTTHNLNRTNNTCAKDLPVESVHVSSPEESIMGRSRENEHLMEFLG 81 (207)
Q Consensus 2 Vl~ls~~kr~d~~lL~ri~~~~e~~~~~~~~~~~~~~~~~~~t~~~~~~d~~~~~~~~~~~~~~~~~~~r~~e~l~e~~G 81 (207)
.++|..+++.|.+++..|+..+|+.. +.+ +. +.++..+. ..|.+|
T Consensus 613 ll~~~~~~~d~~vl~~iv~~~~~~~~----d~s---------------------------~d-e~~~~k~~---~kelmg 657 (777)
T KOG1128|consen 613 LLDLRKKYKDDEVLLIIVRTVLEGMT----DES---------------------------GD-EATGLKGK---LKELLG 657 (777)
T ss_pred HHHhhhhcccchhhHHHHHHHHhhcc----ccc---------------------------cc-hhhhhhHH---HHHHHH
Confidence 46788889999999999999999986 111 00 11122222 229999
Q ss_pred HHHHHHHhccchhhHHH-HHHHHHHHhCC-hhhhHHHHHHHHhhhccCc-cccchhHHHHHHHHHHHHHHHHHHHhcCCC
Q 028535 82 KILQQVVRSESSADMWG-LYARWLKNKGD-LTMCSEALLKQVRSYQGSD-LWKDRDRFKRFSYASLELCKVYMEISSSSG 158 (207)
Q Consensus 82 kil~qiv~S~~~~diWg-LyAryh~~~G~-~~~a~EA~LKqVRslqgS~-w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G 158 (207)
++++|+++++.+..||+ +|+.+...+++ ..+|.++..|++++..++. |.+|.+.|++++++++.||.+|+|+...-+
T Consensus 658 ~~~~qv~~s~~~wrL~a~l~~~~~~ek~~~~eka~~~l~k~~~~~s~~~~w~~d~~~~~~~v~~a~~l~~v~~e~~~~i~ 737 (777)
T KOG1128|consen 658 KVLSQVTNSPETWRLYALLYGNGSSEKLDENEKAYRALSKAYKCDTGSNVWEKDITLFKEVVQAALGLAHVAIECSKNIS 737 (777)
T ss_pred HHHHHHhCchhhhHhHhhhccccchhcccccHHHHhhhhhCccccccccCCccchhHHHHHHHHHHHHHHHHHHHhhhhH
Confidence 99999999744444444 44455555554 4599999999999999995 556999999999999999999999999999
Q ss_pred cchh-hHHHHHHhHHHHHhhc-CCCCcHhHHHHHHHHHHH
Q 028535 159 SRRE-LFAAEMHLKNVLKQAE-GFSDMEEFRDLHACLDEL 196 (207)
Q Consensus 159 ~~re-L~sA~MHLk~~lKqae-~F~ete~~k~L~acL~Ev 196 (207)
+.+| ++++|||||++++++. +|.+++ -.++..+|+++
T Consensus 738 s~~e~~~t~rl~Lk~~~~~~~~~~~d~~-~~~~~~~L~~~ 776 (777)
T KOG1128|consen 738 SSQEMLSTVRLNLKGLLSKAKVSFTDSA-TGELERELEDD 776 (777)
T ss_pred HHHHHHHHHHHHHHHHHHHhccchhhhh-hHHHHHHHhhc
Confidence 9999 9999999999999999 999999 89999998875
No 2
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=92.80 E-value=0.2 Score=32.14 Aligned_cols=31 Identities=16% Similarity=0.174 Sum_probs=28.3
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSY 124 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRsl 124 (207)
|++|-.+|+++...|+++.|.+.+.+.++..
T Consensus 1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~ 31 (44)
T PF13428_consen 1 PAAWLALARAYRRLGQPDEAERLLRRALALD 31 (44)
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 5789999999999999999999999988843
No 3
>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=91.07 E-value=0.51 Score=27.50 Aligned_cols=29 Identities=17% Similarity=0.240 Sum_probs=26.1
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
|++|-..+..+...|+++.|++...|.++
T Consensus 1 a~~~~~lg~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF07719_consen 1 AEAWYYLGQAYYQLGNYEEAIEYFEKALE 29 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence 57899999999999999999999999886
No 4
>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B.
Probab=85.57 E-value=3 Score=27.57 Aligned_cols=41 Identities=15% Similarity=0.331 Sum_probs=31.2
Q ss_pred HHHHHHHhcc-chhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 82 KILQQVVRSE-SSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 82 kil~qiv~S~-~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+++++++... ..+++|-.+++-+...|+++.|.+...+.+.
T Consensus 18 ~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~ 59 (65)
T PF13432_consen 18 AAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALE 59 (65)
T ss_dssp HHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 3455555444 4599999999999999999999977776665
No 5
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=83.31 E-value=4.3 Score=33.87 Aligned_cols=49 Identities=10% Similarity=0.203 Sum_probs=40.7
Q ss_pred hHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 74 EHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 74 e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+...+++..+-+.+..++..++.|-..++++...|+++.|.++.-+.++
T Consensus 53 ~~~~~~i~~l~~~L~~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~ 101 (198)
T PRK10370 53 QTPEAQLQALQDKIRANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQ 101 (198)
T ss_pred hhHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3345666666666667777799999999999999999999999998887
No 6
>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=82.78 E-value=3.2 Score=24.30 Aligned_cols=29 Identities=17% Similarity=0.187 Sum_probs=25.4
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+.+|-+.++.+..+|+++.|.+...|.+.
T Consensus 1 a~~~~~lg~~y~~~~~~~~A~~~~~~a~~ 29 (34)
T PF13181_consen 1 AEAYYNLGKIYEQLGDYEEALEYFEKALE 29 (34)
T ss_dssp -HHHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence 46899999999999999999999888765
No 7
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=80.58 E-value=21 Score=30.18 Aligned_cols=50 Identities=20% Similarity=0.226 Sum_probs=34.7
Q ss_pred hHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhh
Q 028535 74 EHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSY 124 (207)
Q Consensus 74 e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRsl 124 (207)
+++.++|-++.+ ....+..+.+|-.+|.++...|+.+.|.+...|.++--
T Consensus 127 ~~~~~~l~~~~~-~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~ 176 (280)
T PF13429_consen 127 DEAEELLEKLEE-LPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALELD 176 (280)
T ss_dssp HHHHHHHHHHHH--T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHh-ccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence 334444444442 22223448999999999999999999999999999843
No 8
>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B.
Probab=79.83 E-value=8.4 Score=28.96 Aligned_cols=54 Identities=22% Similarity=0.233 Sum_probs=43.4
Q ss_pred HHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhH
Q 028535 80 LGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDR 135 (207)
Q Consensus 80 ~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~ 135 (207)
+..+-+++..++...+..--+|..+...|+++.|.|.+|.-|| ...+|..|..|
T Consensus 8 ~~al~~~~a~~P~D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~--~dr~~~~~~ar 61 (90)
T PF14561_consen 8 IAALEAALAANPDDLDARYALADALLAAGDYEEALDQLLELVR--RDRDYEDDAAR 61 (90)
T ss_dssp HHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHC--C-TTCCCCHHH
T ss_pred HHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCccccccHHH
Confidence 4456677778887788999999999999999999999999999 56788887665
No 9
>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=77.11 E-value=6 Score=23.25 Aligned_cols=29 Identities=14% Similarity=0.072 Sum_probs=25.2
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
|++|-..+.-+..+|+++.|.+...+.+.
T Consensus 1 a~~~~~~g~~~~~~~~~~~A~~~~~~al~ 29 (34)
T PF00515_consen 1 AEAYYNLGNAYFQLGDYEEALEYYQRALE 29 (34)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred CHHHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence 57899999999999999999999988775
No 10
>PRK10803 tol-pal system protein YbgF; Provisional
Probab=76.32 E-value=50 Score=29.29 Aligned_cols=95 Identities=12% Similarity=0.095 Sum_probs=65.4
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhc
Q 028535 76 LMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISS 155 (207)
Q Consensus 76 l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s 155 (207)
-+..|-+++++--++.-.+..|-..+..+..+|+++.|.+.+.+-+..+-.+.| ...|-+.|..+|.+.
T Consensus 162 Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~---------~~dAl~klg~~~~~~-- 230 (263)
T PRK10803 162 AIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPK---------AADAMFKVGVIMQDK-- 230 (263)
T ss_pred HHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcc---------hhHHHHHHHHHHHHc--
Confidence 334444444443344334688999999999999999999999999988777755 345566677777752
Q ss_pred CCCcchhhHHHHHHhHHHHHhhcCCCCcHhHHHH
Q 028535 156 SSGSRRELFAAEMHLKNVLKQAEGFSDMEEFRDL 189 (207)
Q Consensus 156 ~~G~~reL~sA~MHLk~~lKqae~F~ete~~k~L 189 (207)
.+...|+-.++.+++ .|++++.-++-
T Consensus 231 -----g~~~~A~~~~~~vi~---~yP~s~~a~~A 256 (263)
T PRK10803 231 -----GDTAKAKAVYQQVIK---KYPGTDGAKQA 256 (263)
T ss_pred -----CCHHHHHHHHHHHHH---HCcCCHHHHHH
Confidence 345578877777655 57777655433
No 11
>PRK10866 outer membrane biogenesis protein BamD; Provisional
Probab=75.63 E-value=53 Score=28.45 Aligned_cols=124 Identities=14% Similarity=0.078 Sum_probs=79.9
Q ss_pred hhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHH
Q 028535 72 ENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYM 151 (207)
Q Consensus 72 ~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ 151 (207)
..++-++.|.+++.+--.++-.....=..|.-|...|+++.|.....+-++-.-++. ...||..-+.||.-++
T Consensus 47 ~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~-------~~~~a~Y~~g~~~~~~ 119 (243)
T PRK10866 47 NWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHP-------NIDYVLYMRGLTNMAL 119 (243)
T ss_pred CHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCC-------chHHHHHHHHHhhhhc
Confidence 344556777777775554543322223344445668999999999999999776653 4578888888886444
Q ss_pred H------HhcCCCcchhhHHHHHHhHHHHHhhcCCCCcHhHHHHHHHHHHHHHhhcc
Q 028535 152 E------ISSSSGSRRELFAAEMHLKNVLKQAEGFSDMEEFRDLHACLDELKTKLQS 202 (207)
Q Consensus 152 e------i~s~~G~~reL~sA~MHLk~~lKqae~F~ete~~k~L~acL~Ev~~~~~s 202 (207)
+ ..+.+.+.+|-..++-=++..-+-...|++++-..+-+.-|.++++++..
T Consensus 120 ~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~yP~S~ya~~A~~rl~~l~~~la~ 176 (243)
T PRK10866 120 DDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGYPNSQYTTDATKRLVFLKDRLAK 176 (243)
T ss_pred chhhhhhccCCCccccCHHHHHHHHHHHHHHHHHCcCChhHHHHHHHHHHHHHHHHH
Confidence 3 11223345665555544444434445899998888888888888777643
No 12
>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []. Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.
Probab=75.36 E-value=37 Score=29.31 Aligned_cols=58 Identities=19% Similarity=0.212 Sum_probs=51.1
Q ss_pred hHHHHHHHHHHHHHHhccch---hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCcccc
Q 028535 74 EHLMEFLGKILQQVVRSESS---ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWK 131 (207)
Q Consensus 74 e~l~e~~Gkil~qiv~S~~~---~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~k 131 (207)
..++++|.+.+.+..+.+.. ..|=...|+-+...|++++|..-+.+...++-..|||.
T Consensus 155 ~~iI~lL~~A~~~f~~~~~~R~~~~l~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~ 215 (247)
T PF11817_consen 155 KLIIELLEKAYEQFKKYGQNRMASYLSLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWS 215 (247)
T ss_pred HHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHH
Confidence 34899999999999877644 57777889999999999999999999999999999995
No 13
>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=73.09 E-value=11 Score=24.75 Aligned_cols=36 Identities=17% Similarity=0.212 Sum_probs=29.2
Q ss_pred hccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhh
Q 028535 89 RSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSY 124 (207)
Q Consensus 89 ~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRsl 124 (207)
.++..+++|-.+|+.+-..|+++.|.+.+-+-...-
T Consensus 20 ~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~ 55 (68)
T PF14559_consen 20 RNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD 55 (68)
T ss_dssp HTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence 455669999999999999999999998877666543
No 14
>PF12862 Apc5: Anaphase-promoting complex subunit 5
Probab=70.46 E-value=40 Score=24.78 Aligned_cols=83 Identities=20% Similarity=0.185 Sum_probs=57.6
Q ss_pred HHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHhhcCCCCcH
Q 028535 105 KNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQAEGFSDME 184 (207)
Q Consensus 105 ~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKqae~F~ete 184 (207)
-..||+..|.|.+.+..=-...+++..+ +..|+.|.+.|+.++... |. .+ .|...++..|+.|+.=.|..
T Consensus 9 ~~~~dy~~A~d~L~~~fD~~~~~~~~~~---~~~~~~all~lA~~~~~~----G~-~~--~A~~~l~eAi~~Are~~D~~ 78 (94)
T PF12862_consen 9 LRSGDYSEALDALHRYFDYAKQSNNSSS---NSGLAYALLNLAELHRRF----GH-YE--EALQALEEAIRLARENGDRR 78 (94)
T ss_pred HHcCCHHHHHHHHHHHHHHHhhcccchh---hHHHHHHHHHHHHHHHHh----CC-HH--HHHHHHHHHHHHHHHHCCHH
Confidence 3579999999998887744444444443 556777788888888763 22 33 68999999999998667766
Q ss_pred hHHHHHHHHHHHH
Q 028535 185 EFRDLHACLDELK 197 (207)
Q Consensus 185 ~~k~L~acL~Ev~ 197 (207)
-......++.++.
T Consensus 79 ~l~~al~~~~~l~ 91 (94)
T PF12862_consen 79 CLAYALSWLANLL 91 (94)
T ss_pred HHHHHHHHHHHHh
Confidence 6665555555544
No 15
>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=66.56 E-value=12 Score=18.96 Aligned_cols=29 Identities=17% Similarity=0.025 Sum_probs=24.1
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
++.|-.++..+...|+++.|.....+.+.
T Consensus 1 ~~~~~~~a~~~~~~~~~~~a~~~~~~~~~ 29 (34)
T smart00028 1 AEALYNLGNAYLKLGDYDEALEYYEKALE 29 (34)
T ss_pred ChHHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence 35788889999999999999998876664
No 16
>PF13371 TPR_9: Tetratricopeptide repeat
Probab=64.72 E-value=19 Score=23.96 Aligned_cols=46 Identities=24% Similarity=0.356 Sum_probs=35.0
Q ss_pred hHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 74 EHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 74 e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+...+.+.+++.- .+..+.+|..+|..+...|++..|.+.+.+.+.
T Consensus 12 ~~A~~~~~~~l~~---~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~ 57 (73)
T PF13371_consen 12 EEALEVLERALEL---DPDDPELWLQRARCLFQLGRYEEALEDLERALE 57 (73)
T ss_pred HHHHHHHHHHHHh---CcccchhhHHHHHHHHHhccHHHHHHHHHHHHH
Confidence 3444444444442 445599999999999999999999999888774
No 17
>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins. The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.
Probab=63.78 E-value=23 Score=31.03 Aligned_cols=69 Identities=17% Similarity=0.309 Sum_probs=45.5
Q ss_pred HHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcC
Q 028535 77 MEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSS 156 (207)
Q Consensus 77 ~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~ 156 (207)
..+|...++..-.+ .++|-.|.+|.-.+||.+.|...+-+.|-.+-... .+..|++-|++..+.
T Consensus 56 ~~Ife~glk~f~~~---~~~~~~Y~~~l~~~~d~~~aR~lfer~i~~l~~~~-------------~~~~iw~~~i~fE~~ 119 (280)
T PF05843_consen 56 RKIFERGLKKFPSD---PDFWLEYLDFLIKLNDINNARALFERAISSLPKEK-------------QSKKIWKKFIEFESK 119 (280)
T ss_dssp HHHHHHHHHHHTT----HHHHHHHHHHHHHTT-HHHHHHHHHHHCCTSSCHH-------------HCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHCCCC---HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcCchh-------------HHHHHHHHHHHHHHH
Confidence 34444555554444 89999999999999999999988888876543321 166677777765555
Q ss_pred CCcch
Q 028535 157 SGSRR 161 (207)
Q Consensus 157 ~G~~r 161 (207)
-|...
T Consensus 120 ~Gdl~ 124 (280)
T PF05843_consen 120 YGDLE 124 (280)
T ss_dssp HS-HH
T ss_pred cCCHH
Confidence 55333
No 18
>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=63.76 E-value=32 Score=21.12 Aligned_cols=32 Identities=19% Similarity=0.038 Sum_probs=27.0
Q ss_pred hhhHHHHHHHHHHHhCChhhhHHHHHHHHhhh
Q 028535 93 SADMWGLYARWLKNKGDLTMCSEALLKQVRSY 124 (207)
Q Consensus 93 ~~diWgLyAryh~~~G~~~~a~EA~LKqVRsl 124 (207)
.+.+|-.++..+...|+++.|.+...+.++..
T Consensus 33 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~ 64 (100)
T cd00189 33 NADAYYNLAAAYYKLGKYEEALEDYEKALELD 64 (100)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 36899999999999999999999887776643
No 19
>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=59.93 E-value=15 Score=24.28 Aligned_cols=65 Identities=20% Similarity=0.262 Sum_probs=45.7
Q ss_pred hhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHH
Q 028535 93 SADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKN 172 (207)
Q Consensus 93 ~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~ 172 (207)
.|++|-..|..+...|+++.|.+..-+.++- + ++ .+.+-..|+.+|+... ++.-.|.-+++.
T Consensus 2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~-~-------p~----~~~~~~~~g~~~~~~~------~~~~~A~~~~~~ 63 (69)
T PF13414_consen 2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIEL-D-------PN----NAEAYYNLGLAYMKLG------KDYEEAIEDFEK 63 (69)
T ss_dssp SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH-S-------TT----HHHHHHHHHHHHHHTT------THHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-C-------CC----CHHHHHHHHHHHHHhC------ccHHHHHHHHHH
Confidence 3789999999999999999999999999984 2 11 2345566667777621 133455555555
Q ss_pred HHH
Q 028535 173 VLK 175 (207)
Q Consensus 173 ~lK 175 (207)
.|+
T Consensus 64 al~ 66 (69)
T PF13414_consen 64 ALK 66 (69)
T ss_dssp HHH
T ss_pred HHH
Confidence 554
No 20
>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A.
Probab=57.22 E-value=20 Score=22.02 Aligned_cols=25 Identities=16% Similarity=0.205 Sum_probs=20.9
Q ss_pred HHHHHHHHHHhCChhhhHHHHHHHH
Q 028535 97 WGLYARWLKNKGDLTMCSEALLKQV 121 (207)
Q Consensus 97 WgLyAryh~~~G~~~~a~EA~LKqV 121 (207)
|...|+.|...|++++|++...++.
T Consensus 2 l~~Lg~~~~~~g~~~~Ai~~y~~aL 26 (36)
T PF13176_consen 2 LNNLGRIYRQQGDYEKAIEYYEQAL 26 (36)
T ss_dssp HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence 6678999999999999999988844
No 21
>smart00386 HAT HAT (Half-A-TPR) repeats. Present in several RNA-binding proteins. Structurally and sequentially thought to be similar to TPRs.
Probab=56.66 E-value=18 Score=20.04 Aligned_cols=23 Identities=22% Similarity=0.492 Sum_probs=14.9
Q ss_pred HHHHHHhcc-chhhHHHHHHHHHH
Q 028535 83 ILQQVVRSE-SSADMWGLYARWLK 105 (207)
Q Consensus 83 il~qiv~S~-~~~diWgLyAryh~ 105 (207)
+.+++++.- ..+++|-.|++|..
T Consensus 9 i~e~~l~~~~~~~~~W~~y~~~e~ 32 (33)
T smart00386 9 IYERALEKFPKSVELWLKYAEFEE 32 (33)
T ss_pred HHHHHHHHCCCChHHHHHHHHHHh
Confidence 444433332 34999999999864
No 22
>PF07794 DUF1633: Protein of unknown function (DUF1633); InterPro: IPR012436 This family contains sequences derived from a group of hypothetical proteins expressed by Arabidopsis thaliana (Mouse-ear cress). These sequences are highly similar and the region concerned is about 100 residues long.
Probab=55.05 E-value=42 Score=34.24 Aligned_cols=106 Identities=25% Similarity=0.236 Sum_probs=72.3
Q ss_pred hhHHHHHHHHHHHh---CChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcC--------------
Q 028535 94 ADMWGLYARWLKNK---GDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSS-------------- 156 (207)
Q Consensus 94 ~diWgLyAryh~~~---G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~-------------- 156 (207)
-+|||+-+|-.-+. -+++.+.|-+-||||-|-++. |+.=+.+-.+-.+|+-.|--+-.+
T Consensus 604 ~Ei~glq~DkQ~ar~qIh~Le~~Reelsk~V~DLtssa----QgakKAVhdaK~ElA~~Y~klLagiKEKwv~KKe~t~l 679 (790)
T PF07794_consen 604 MEIGGLQADKQTARNQIHRLEQRREELSKRVMDLTSSA----QGAKKAVHDAKVELAAAYSKLLAGIKEKWVAKKEYTVL 679 (790)
T ss_pred hhhcchhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence 48999999976554 578899999999999987763 333346666667777666543221
Q ss_pred CCcchhhHHHHHHhHHHHHhhcCCCCcHhHHHHHHHHHHHHHhhccCCC
Q 028535 157 SGSRRELFAAEMHLKNVLKQAEGFSDMEEFRDLHACLDELKTKLQSGPV 205 (207)
Q Consensus 157 ~G~~reL~sA~MHLk~~lKqae~F~ete~~k~L~acL~Ev~~~~~s~~~ 205 (207)
-|...|+-+---.|+.++|.+- .-|.++-.||+.|++++..-++..+
T Consensus 680 e~qAaEvesNlaLidqi~kaaI--dltvEkprlqAeLdd~ea~ck~keV 726 (790)
T PF07794_consen 680 EGQAAEVESNLALIDQITKAAI--DLTVEKPRLQAELDDLEARCKSKEV 726 (790)
T ss_pred HHHHHHHHhhHHHHHHHHHHHH--HHHHhhhHHHhhchHHHhhhhhccc
Confidence 2233344444445666666653 3368888999999999988877655
No 23
>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=54.74 E-value=40 Score=20.63 Aligned_cols=29 Identities=17% Similarity=0.030 Sum_probs=25.0
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+.+|...+..+...|+++.|.+...+.++
T Consensus 68 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~ 96 (100)
T cd00189 68 AKAYYNLGLAYYKLGKYEEALEAYEKALE 96 (100)
T ss_pred hhHHHHHHHHHHHHHhHHHHHHHHHHHHc
Confidence 68999999999999999999888766554
No 24
>PF13431 TPR_17: Tetratricopeptide repeat
Probab=54.34 E-value=14 Score=22.83 Aligned_cols=26 Identities=19% Similarity=0.245 Sum_probs=22.7
Q ss_pred hccchhhHHHHHHHHHHHhCChhhhH
Q 028535 89 RSESSADMWGLYARWLKNKGDLTMCS 114 (207)
Q Consensus 89 ~S~~~~diWgLyAryh~~~G~~~~a~ 114 (207)
..+..++.|-.+|..+...|+++.|.
T Consensus 8 ~~P~n~~a~~nla~~~~~~g~~~~A~ 33 (34)
T PF13431_consen 8 LNPNNAEAYNNLANLYLNQGDYEEAI 33 (34)
T ss_pred HCCCCHHHHHHHHHHHHHCcCHHhhc
Confidence 34566999999999999999999986
No 25
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=51.21 E-value=23 Score=27.33 Aligned_cols=36 Identities=22% Similarity=0.114 Sum_probs=22.4
Q ss_pred HHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHH
Q 028535 85 QQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQ 120 (207)
Q Consensus 85 ~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKq 120 (207)
+++......+.+|.+.++-+...|+.+.|..+..++
T Consensus 109 ~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A 144 (145)
T PF09976_consen 109 QQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA 144 (145)
T ss_pred HhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence 333333334677777777777777777777766554
No 26
>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]
Probab=47.17 E-value=2.4e+02 Score=28.84 Aligned_cols=127 Identities=17% Similarity=0.366 Sum_probs=83.2
Q ss_pred hhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhh-----------ccCccccchhHHHHHH
Q 028535 72 ENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSY-----------QGSDLWKDRDRFKRFS 140 (207)
Q Consensus 72 ~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRsl-----------qgS~w~kD~~~F~kya 140 (207)
.++.|.-+||+-|.+.-+ -|+|.+|-+|-++..++-.. +++-+-+-++ +++..|..-.-|.+|-
T Consensus 91 df~svE~lf~rCL~k~l~----ldLW~lYl~YIRr~n~~~tG-q~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~ 165 (660)
T COG5107 91 DFRSVESLFGRCLKKSLN----LDLWMLYLEYIRRVNNLITG-QKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYI 165 (660)
T ss_pred hHHHHHHHHHHHHhhhcc----HhHHHHHHHHHHhhCccccc-chhhhhHHHHHHHHhcccccccccchHHHHHHHHHhc
Confidence 345578888888887663 69999999999988766544 6666666655 5788888888888776
Q ss_pred HHH--------HHHH-HHHHH-HhcCCCcchhh----HHHHHHhHHHHHhhcCCCC--cHhHHHHHHHHHHHHHhhccCC
Q 028535 141 YAS--------LELC-KVYME-ISSSSGSRREL----FAAEMHLKNVLKQAEGFSD--MEEFRDLHACLDELKTKLQSGP 204 (207)
Q Consensus 141 ~As--------l~Lc-~vY~e-i~s~~G~~reL----~sA~MHLk~~lKqae~F~e--te~~k~L~acL~Ev~~~~~s~~ 204 (207)
.+. +++. +.|+. +..--|....| -+=+.-|+.+- |..|-. .++|-.-.+.+.|+-+++.-++
T Consensus 166 ~~~~kwEeQqrid~iR~~Y~ral~tP~~nleklW~dy~~fE~e~N~~T--arKfvge~sp~ym~ar~~yqe~~nlt~Gl~ 243 (660)
T COG5107 166 EELGKWEEQQRIDKIRNGYMRALQTPMGNLEKLWKDYENFELELNKIT--ARKFVGETSPIYMSARQRYQEIQNLTRGLS 243 (660)
T ss_pred cccccHHHHHHHHHHHHHHHHHHcCccccHHHHHHHHHHHHHHHHHHH--HHHHhcccCHHHHHHHHHHHHHHHHhcccc
Confidence 543 2333 67775 44444544333 23333333321 224433 6788888888888888887666
Q ss_pred C
Q 028535 205 V 205 (207)
Q Consensus 205 ~ 205 (207)
+
T Consensus 244 v 244 (660)
T COG5107 244 V 244 (660)
T ss_pred c
Confidence 5
No 27
>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A.
Probab=46.87 E-value=1.9e+02 Score=25.03 Aligned_cols=93 Identities=19% Similarity=0.206 Sum_probs=62.8
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHH
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNV 173 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~ 173 (207)
.++..-.|+.+..+|+++.|++...+..+.......-+ -...+|. ....||.+.++ |+-.|+.-+...
T Consensus 155 ~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~--~~~~~~~-l~a~l~~L~~~---------D~v~A~~~~~~~ 222 (282)
T PF14938_consen 155 AECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLK--YSAKEYF-LKAILCHLAMG---------DYVAARKALERY 222 (282)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTG--HHHHHHH-HHHHHHHHHTT----------HHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccc--hhHHHHH-HHHHHHHHHcC---------CHHHHHHHHHHH
Confidence 58888899999999999999999998888654333211 1122221 23356666652 455677777776
Q ss_pred HHhhcCCCCcHhHHHHHHHHHHHHH
Q 028535 174 LKQAEGFSDMEEFRDLHACLDELKT 198 (207)
Q Consensus 174 lKqae~F~ete~~k~L~acL~Ev~~ 198 (207)
.-+.-+|.+|++++-+..|++=++.
T Consensus 223 ~~~~~~F~~s~E~~~~~~l~~A~~~ 247 (282)
T PF14938_consen 223 CSQDPSFASSREYKFLEDLLEAYEE 247 (282)
T ss_dssp GTTSTTSTTSHHHHHHHHHHHHHHT
T ss_pred HhhCCCCCCcHHHHHHHHHHHHHHh
Confidence 6665599999999988887765543
No 28
>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi. They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].
Probab=46.57 E-value=83 Score=29.96 Aligned_cols=51 Identities=20% Similarity=0.332 Sum_probs=40.5
Q ss_pred ccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHH
Q 028535 90 SESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYME 152 (207)
Q Consensus 90 S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~e 152 (207)
++..++++.+.|++.-.+|+++.|.+...+.|... +..|+-+.. |+++|+.
T Consensus 230 ~p~d~~LL~~Qa~fLl~k~~~~lAL~iAk~av~ls--------P~~f~~W~~----La~~Yi~ 280 (395)
T PF09295_consen 230 NPQDSELLNLQAEFLLSKKKYELALEIAKKAVELS--------PSEFETWYQ----LAECYIQ 280 (395)
T ss_pred CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--------chhHHHHHH----HHHHHHh
Confidence 33448999999999999999999999999999854 556666655 8888884
No 29
>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=46.34 E-value=83 Score=20.63 Aligned_cols=46 Identities=13% Similarity=0.062 Sum_probs=33.4
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHHHHHHHhC-ChhhhHHHHHHHH
Q 028535 76 LMEFLGKILQQVVRSESSADMWGLYARWLKNKG-DLTMCSEALLKQV 121 (207)
Q Consensus 76 l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G-~~~~a~EA~LKqV 121 (207)
+.+.+-.+.+-|--.+..+.+|-..+.-+..+| ++..|.+...|.+
T Consensus 19 ~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al 65 (69)
T PF13414_consen 19 YEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKAL 65 (69)
T ss_dssp HHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHH
Confidence 334443333333345566999999999999999 7999999888765
No 30
>PRK02603 photosystem I assembly protein Ycf3; Provisional
Probab=45.89 E-value=1.5e+02 Score=23.43 Aligned_cols=30 Identities=7% Similarity=-0.044 Sum_probs=26.3
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRs 123 (207)
+.+|-.++.-+..+|+++.|.++..+.++.
T Consensus 72 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 101 (172)
T PRK02603 72 SYILYNMGIIYASNGEHDKALEYYHQALEL 101 (172)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 578888899999999999999999888874
No 31
>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=45.14 E-value=1.3e+02 Score=22.59 Aligned_cols=30 Identities=10% Similarity=0.159 Sum_probs=19.1
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRs 123 (207)
+..|...+..+...|+++.|.+...+.+..
T Consensus 65 ~~~~~~la~~~~~~~~~~~A~~~~~~al~~ 94 (234)
T TIGR02521 65 YLAYLALALYYQQLGELEKAEDSFRRALTL 94 (234)
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 566666666666666666666666655553
No 32
>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A.
Probab=43.79 E-value=59 Score=19.00 Aligned_cols=32 Identities=16% Similarity=0.100 Sum_probs=23.9
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhc
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQ 125 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRslq 125 (207)
+......|.++...|+++.|.+...+.+.-.+
T Consensus 2 a~~~~~la~~~~~~g~~~~A~~~~~~al~~~~ 33 (42)
T PF13374_consen 2 ASALNNLANAYRAQGRYEEALELLEEALEIRE 33 (42)
T ss_dssp HHHHHHHHHHHHHCT-HHHHHHHHHHHHHHH-
T ss_pred HHHHHHHHHHHHhhhhcchhhHHHHHHHHHHH
Confidence 34556788899999999999999888776543
No 33
>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function.
Probab=43.79 E-value=1.3e+02 Score=23.23 Aligned_cols=68 Identities=19% Similarity=0.156 Sum_probs=42.8
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHH
Q 028535 76 LMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYME 152 (207)
Q Consensus 76 l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~e 152 (207)
+.+.+.+|++.--+++.....+=..|+-+...|+++.|.+.+.+-+..- +|. .+. .-+.+.|+++|+.
T Consensus 30 ~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~------~d~-~l~--~~a~l~LA~~~~~ 97 (145)
T PF09976_consen 30 AEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA------PDP-ELK--PLARLRLARILLQ 97 (145)
T ss_pred HHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC------CCH-HHH--HHHHHHHHHHHHH
Confidence 4555566655433332224555557788888999999999998877622 222 233 3456778888885
No 34
>PRK09634 nusB transcription antitermination protein NusB; Provisional
Probab=41.99 E-value=66 Score=28.29 Aligned_cols=38 Identities=29% Similarity=0.314 Sum_probs=26.1
Q ss_pred hcCCCcchhhHHHHHHhHHHHHhhc----CCCCcHhHHHHHH
Q 028535 154 SSSSGSRRELFAAEMHLKNVLKQAE----GFSDMEEFRDLHA 191 (207)
Q Consensus 154 ~s~~G~~reL~sA~MHLk~~lKqae----~F~ete~~k~L~a 191 (207)
-.|.+...++.++|.||+..|..+| +.+.+-.+-.+..
T Consensus 64 ~~s~~~~~~~~~~r~~l~~~~~~~~~~~ng~s~~~~lp~ll~ 105 (207)
T PRK09634 64 LDSEGDASDLESARTMLQEALTLAETAINRLSAALELPELLQ 105 (207)
T ss_pred HhhhccccchHHHHHHHHHHHHHHHHHHccccHHHHHHHHHH
Confidence 3344555788899999999888877 6666655554443
No 35
>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional
Probab=41.77 E-value=2.7e+02 Score=25.32 Aligned_cols=82 Identities=15% Similarity=0.126 Sum_probs=53.1
Q ss_pred hHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHH
Q 028535 74 EHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEI 153 (207)
Q Consensus 74 e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei 153 (207)
..-++.+.+.|+ ..+..+.+|...|..+..+|+++.|...+.+.++--. .++.+-..|..+|+..
T Consensus 19 ~~Ai~~~~~Al~---~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P------------~~~~a~~~lg~~~~~l 83 (356)
T PLN03088 19 ALAVDLYTQAID---LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDP------------SLAKAYLRKGTACMKL 83 (356)
T ss_pred HHHHHHHHHHHH---hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc------------CCHHHHHHHHHHHHHh
Confidence 344444444444 3445589999999999999999999999888877322 1233444555566542
Q ss_pred hcCCCcchhhHHHHHHhHHHHHhh
Q 028535 154 SSSSGSRRELFAAEMHLKNVLKQA 177 (207)
Q Consensus 154 ~s~~G~~reL~sA~MHLk~~lKqa 177 (207)
.+...|.-+++-.++..
T Consensus 84 -------g~~~eA~~~~~~al~l~ 100 (356)
T PLN03088 84 -------EEYQTAKAALEKGASLA 100 (356)
T ss_pred -------CCHHHHHHHHHHHHHhC
Confidence 33446777776666544
No 36
>PF05635 23S_rRNA_IVP: 23S rRNA-intervening sequence protein; InterPro: IPR008815 This family consists of bacterial proteins encoded within an intervening sequence present within some 23S rRNA genes[]. The function of these proteins is not known, but a structural study indicates that each momonmer folds into an antiparallel four-helix bundle, while the overall protein is a homopentamer with a toroid-shaped structure containing a tapered central channel [].; PDB: 2GSC_E 2RLD_D.
Probab=41.45 E-value=1.1e+02 Score=23.08 Aligned_cols=53 Identities=26% Similarity=0.382 Sum_probs=38.9
Q ss_pred ccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHhhcCCCCcHhHHHHHHHHHHHHHhhc
Q 028535 128 DLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQAEGFSDMEEFRDLHACLDELKTKLQ 201 (207)
Q Consensus 128 ~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKqae~F~ete~~k~L~acL~Ev~~~~~ 201 (207)
.-.+|.-+|=..|..|+.-|+.+++++-. .++-+.+.|.++..-++|+.+++.
T Consensus 56 ~s~~d~~~~l~iA~~s~~E~~~~L~~a~~---------------------~~~i~~~~~~~l~~~~~ei~~~L~ 108 (110)
T PF05635_consen 56 RSKKDFIRFLYIARGSLAELRYWLELARD---------------------LGYISEEEYEELKKELEEISKMLN 108 (110)
T ss_dssp SSHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------TTSS-HHHHHHHHHHHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHH---------------------cCCCCHHHHHHHHHHHHHHHHHHc
Confidence 44567777777888888888888886541 156667888888888888888774
No 37
>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=39.96 E-value=1.5e+02 Score=21.68 Aligned_cols=39 Identities=10% Similarity=0.054 Sum_probs=29.7
Q ss_pred HHHHHhcc-chhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 84 LQQVVRSE-SSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 84 l~qiv~S~-~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+++++... ..+++|-..+.-....|+++.|.+...+.++
T Consensus 40 ~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~ 79 (135)
T TIGR02552 40 FQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAA 79 (135)
T ss_pred HHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44444433 4489999999999999999999988776555
No 38
>KOG2047 consensus mRNA splicing factor [RNA processing and modification]
Probab=38.90 E-value=2e+02 Score=30.40 Aligned_cols=75 Identities=13% Similarity=0.241 Sum_probs=48.5
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHh-cCCCcchhhHHHHHHh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEIS-SSSGSRRELFAAEMHL 170 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~-s~~G~~reL~sA~MHL 170 (207)
+-+|--+|+|+=+.|.+++|.+-.-+.++.. .-.+.=---|..||++=......=||.+ ...|..++=-..+.|+
T Consensus 248 g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v--~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~ 323 (835)
T KOG2047|consen 248 GFLWCSLADYYIRSGLFEKARDVYEEAIQTV--MTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHM 323 (835)
T ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHHHhh--eehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHH
Confidence 4688899999999999999999888877633 2233333457788877666666666632 2344444433344443
No 39
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=38.62 E-value=36 Score=22.99 Aligned_cols=27 Identities=30% Similarity=0.586 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHh
Q 028535 143 SLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQ 176 (207)
Q Consensus 143 sl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKq 176 (207)
-+.|++.|+++-. .+ +||--|..++..
T Consensus 2 kLdLA~ayie~Gd-----~e--~Ar~lL~evl~~ 28 (44)
T TIGR03504 2 KLDLARAYIEMGD-----LE--GARELLEEVIEE 28 (44)
T ss_pred chHHHHHHHHcCC-----hH--HHHHHHHHHHHc
Confidence 3689999999655 44 788788888854
No 40
>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=38.45 E-value=1.2e+02 Score=20.36 Aligned_cols=72 Identities=14% Similarity=0.079 Sum_probs=48.9
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHH
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNV 173 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~ 173 (207)
+.++...|..+..+|+++.|.+...|.+.-.+.- .+....++.+-..|..+|... .+...|.-++.-.
T Consensus 5 a~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~-----~~~~~~~a~~~~~lg~~~~~~-------g~~~~A~~~~~~a 72 (78)
T PF13424_consen 5 ANAYNNLARVYRELGRYDEALDYYEKALDIEEQL-----GDDHPDTANTLNNLGECYYRL-------GDYEEALEYYQKA 72 (78)
T ss_dssp HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-----TTHHHHHHHHHHHHHHHHHHT-------THHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH-----CCCCHHHHHHHHHHHHHHHHc-------CCHHHHHHHHHHH
Confidence 5677788889999999999999999998753222 123455677777788888752 3344666666665
Q ss_pred HHhh
Q 028535 174 LKQA 177 (207)
Q Consensus 174 lKqa 177 (207)
++..
T Consensus 73 l~i~ 76 (78)
T PF13424_consen 73 LDIF 76 (78)
T ss_dssp HHHH
T ss_pred Hhhh
Confidence 5543
No 41
>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division. This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.
Probab=38.10 E-value=85 Score=24.78 Aligned_cols=39 Identities=15% Similarity=0.282 Sum_probs=30.0
Q ss_pred HHHHHHHhccch---hhHHHHHHHHHHHhCChhhhHHHHHHH
Q 028535 82 KILQQVVRSESS---ADMWGLYARWLKNKGDLTMCSEALLKQ 120 (207)
Q Consensus 82 kil~qiv~S~~~---~diWgLyAryh~~~G~~~~a~EA~LKq 120 (207)
++.+.+.+++-| |.+|--||.++...|++..|.+-..+.
T Consensus 84 ~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~G 125 (126)
T PF08311_consen 84 EIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQLG 125 (126)
T ss_dssp HHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred HHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHhh
Confidence 466667766633 899999999999999999998876653
No 42
>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]
Probab=36.67 E-value=58 Score=32.92 Aligned_cols=58 Identities=22% Similarity=0.405 Sum_probs=41.8
Q ss_pred HHHHHHHHHHh-ccchhhHHHHHHHHHHHhCC-hhhhHHHHHHHHhhhccC-ccccchhHH
Q 028535 79 FLGKILQQVVR-SESSADMWGLYARWLKNKGD-LTMCSEALLKQVRSYQGS-DLWKDRDRF 136 (207)
Q Consensus 79 ~~Gkil~qiv~-S~~~~diWgLyAryh~~~G~-~~~a~EA~LKqVRslqgS-~w~kD~~~F 136 (207)
-+++|..|+.. .+-.+|||=.+|.|-.--+. .++|...+|+..|=-.-| ..|+.-=+|
T Consensus 123 ~v~ki~~~~l~~Hp~~~dLWI~aA~wefe~n~ni~saRalflrgLR~npdsp~Lw~eyfrm 183 (568)
T KOG2396|consen 123 EVKKIFAAMLAKHPNNPDLWIYAAKWEFEINLNIESARALFLRGLRFNPDSPKLWKEYFRM 183 (568)
T ss_pred HHHHHHHHHHHhCCCCchhHHhhhhhHHhhccchHHHHHHHHHHhhcCCCChHHHHHHHHH
Confidence 45667777663 34449999999999876665 999999999999966544 455444333
No 43
>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=34.92 E-value=1.8e+02 Score=21.21 Aligned_cols=39 Identities=13% Similarity=0.003 Sum_probs=30.9
Q ss_pred HHHHhcc-chhhHHHHHHHHHHHhCChhhhHHHHHHHHhh
Q 028535 85 QQVVRSE-SSADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (207)
Q Consensus 85 ~qiv~S~-~~~diWgLyAryh~~~G~~~~a~EA~LKqVRs 123 (207)
.++.... ..++.|-.++..+...|+++.|.....+.++-
T Consensus 75 ~~~~~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~ 114 (135)
T TIGR02552 75 ALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEI 114 (135)
T ss_pred HHHHhcCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence 3444333 44899999999999999999999998877773
No 44
>COG1704 LemA Uncharacterized conserved protein [Function unknown]
Probab=34.78 E-value=59 Score=28.53 Aligned_cols=32 Identities=25% Similarity=0.492 Sum_probs=25.5
Q ss_pred hHHHHHhhcCCCC---cHhHHHHHHHHHHHHHhhc
Q 028535 170 LKNVLKQAEGFSD---MEEFRDLHACLDELKTKLQ 201 (207)
Q Consensus 170 Lk~~lKqae~F~e---te~~k~L~acL~Ev~~~~~ 201 (207)
|..++-.+|.|++ .+.|.+||+-|+++++.+.
T Consensus 101 L~rl~a~~E~YPdLKAn~~f~~Lq~ql~~tEn~Ia 135 (185)
T COG1704 101 LGRLFAVAEAYPDLKANENFLELQSQLEGTENRIA 135 (185)
T ss_pred HHHHHHHHHhCcchhhhhHHHHHHHHHHhHHHHHH
Confidence 4445555778887 8999999999999998764
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=34.02 E-value=2.6e+02 Score=26.80 Aligned_cols=34 Identities=15% Similarity=0.191 Sum_probs=26.9
Q ss_pred ccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhh
Q 028535 90 SESSADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (207)
Q Consensus 90 S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRs 123 (207)
.+..+++|-..+..+..+|+++.|.+...|.+.-
T Consensus 395 ~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l 428 (615)
T TIGR00990 395 NSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL 428 (615)
T ss_pred CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence 3444788888888888888888888888877763
No 46
>PF13429 TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2_B.
Probab=33.56 E-value=2.1e+02 Score=24.13 Aligned_cols=30 Identities=23% Similarity=0.322 Sum_probs=20.9
Q ss_pred hhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 93 SADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 93 ~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
.+++|..+|.-+..+|+.+.|.+...+..+
T Consensus 213 ~~~~~~~la~~~~~lg~~~~Al~~~~~~~~ 242 (280)
T PF13429_consen 213 DPDLWDALAAAYLQLGRYEEALEYLEKALK 242 (280)
T ss_dssp SCCHCHHHHHHHHHHT-HHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhcccccccccccccccccc
Confidence 367777777777777777777777777665
No 47
>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]
Probab=31.75 E-value=1.1e+02 Score=31.48 Aligned_cols=68 Identities=25% Similarity=0.458 Sum_probs=48.2
Q ss_pred cchhhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHH-HhCChhhhHHHHHHHHhhh-----------ccCccccchhHH
Q 028535 69 RSRENEHLMEFLGKILQQVVRSESSADMWGLYARWLK-NKGDLTMCSEALLKQVRSY-----------QGSDLWKDRDRF 136 (207)
Q Consensus 69 ~~r~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~-~~G~~~~a~EA~LKqVRsl-----------qgS~w~kD~~~F 136 (207)
+++..+.|.-+|++-|.++-+ =|+|-||-.|-+ .+|.... ++.+-|-++ +++.-|.+---|
T Consensus 65 ~skdfe~VEkLF~RCLvkvLn----lDLW~lYl~YVR~~~~~~~~---~r~~m~qAy~f~l~kig~di~s~siW~eYi~F 137 (656)
T KOG1914|consen 65 ASKDFESVEKLFSRCLVKVLN----LDLWKLYLSYVRETKGKLFG---YREKMVQAYDFALEKIGMDIKSYSIWDEYINF 137 (656)
T ss_pred HhhhHHHHHHHHHHHHHHHhh----HhHHHHHHHHHHHHccCcch---HHHHHHHHHHHHHHHhccCcccchhHHHHHHH
Confidence 356778899999999988875 699999999964 5677666 444444444 355667777777
Q ss_pred HHHHHHH
Q 028535 137 KRFSYAS 143 (207)
Q Consensus 137 ~kya~As 143 (207)
-++..|.
T Consensus 138 L~~vea~ 144 (656)
T KOG1914|consen 138 LEGVEAV 144 (656)
T ss_pred HHccccc
Confidence 7666554
No 48
>PF04048 Sec8_exocyst: Sec8 exocyst complex component specific domain; InterPro: IPR007191 Sec8 is a component of the exocyst complex involved in the docking of exocystic vesicles with a fusion site on the plasma membrane. The exocyst complex is composed of Sec3, Sec5, Sec6, Sec8, Sec10, Sec15, Exo70 and Exo84.; GO: 0006904 vesicle docking involved in exocytosis, 0015031 protein transport, 0000145 exocyst
Probab=31.25 E-value=2.1e+02 Score=23.00 Aligned_cols=45 Identities=20% Similarity=0.181 Sum_probs=32.8
Q ss_pred chhhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHH
Q 028535 70 SRENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSE 115 (207)
Q Consensus 70 ~r~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~E 115 (207)
-.+++++.+.+++.|+.+|+- ---++..--+.||.+...+..|.+
T Consensus 42 ~~~f~~~~~~~~~~L~~vV~e-h~q~Fn~sI~sy~~i~~~i~~sq~ 86 (142)
T PF04048_consen 42 YQEFEELKKRIEKALQEVVNE-HYQGFNSSIGSYSQILSSISESQE 86 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 345667888999999999944 225777778888887777766544
No 49
>PF08919 F_actin_bind: F-actin binding; InterPro: IPR015015 The F-actin binding domain forms a compact bundle of four antiparallel alpha-helices, which are arranged in a left-handed topology. Binding of F-actin to the F-actin binding domain may result in cytoplasmic retention and subcellular distribution of the protein, as well as possible inhibition of protein function []. ; GO: 0004715 non-membrane spanning protein tyrosine kinase activity, 0005524 ATP binding, 0006468 protein phosphorylation; PDB: 1ZZP_A 2KK1_A.
Probab=30.86 E-value=2.8e+02 Score=22.26 Aligned_cols=60 Identities=20% Similarity=0.290 Sum_probs=32.3
Q ss_pred HHHHHHHHHHHH-HhcCCC--cchhhHH-HHHHhHHHHHhhc----CCCCcHhHHHHHHHHHHHHHhhc
Q 028535 141 YASLELCKVYME-ISSSSG--SRRELFA-AEMHLKNVLKQAE----GFSDMEEFRDLHACLDELKTKLQ 201 (207)
Q Consensus 141 ~Asl~Lc~vY~e-i~s~~G--~~reL~s-A~MHLk~~lKqae----~F~ete~~k~L~acL~Ev~~~~~ 201 (207)
..-..+|..|+| |.+..+ .-||+.+ .+.-++ -||+|- +=.++.-+.+|+.|+.||-+.+|
T Consensus 42 ~~l~~~C~~yaD~~~~p~~KF~FREllsrLE~~~r-qLr~~~s~~~~~~~~~l~~~l~~~ikeI~~~Vq 109 (110)
T PF08919_consen 42 QQLHSSCSGYADSIIQPHAKFAFRELLSRLESQSR-QLRSCGSSNSSPENQRLVSDLQNTIKEISNIVQ 109 (110)
T ss_dssp HHHHHHHHHHGGG-S-CCCHHHHHHHHHHHHHHHH-HHCHSSSSSSSTT--THHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHcCcCcchhhhHHHHHHHHHHHHH-HHHhccCCCCCcccHHHHHHHHHHHHHHHHHhc
Confidence 445678999998 443222 2244332 111111 122232 23346778899999999998876
No 50
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=30.52 E-value=6e+02 Score=26.87 Aligned_cols=37 Identities=11% Similarity=0.133 Sum_probs=31.4
Q ss_pred hccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhc
Q 028535 89 RSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQ 125 (207)
Q Consensus 89 ~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslq 125 (207)
..+..+++|...+..+...|+++.|.+.+.+.++...
T Consensus 298 ~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p 334 (1157)
T PRK11447 298 ANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDP 334 (1157)
T ss_pred hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence 3455589999999999999999999999988887543
No 51
>PF04011 LemA: LemA family; InterPro: IPR007156 The members of this family are related to the LemA protein P71452 from SWISSPROT. The exact molecular function of this protein is uncertain. It is predicted to be a transmembrane protein with an extracellular N terminus [].; PDB: 2ETD_A.
Probab=30.31 E-value=3.1e+02 Score=22.61 Aligned_cols=75 Identities=24% Similarity=0.419 Sum_probs=43.3
Q ss_pred HHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHH----hhcCCCC---cHhHHHHH
Q 028535 118 LKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLK----QAEGFSD---MEEFRDLH 190 (207)
Q Consensus 118 LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lK----qae~F~e---te~~k~L~ 190 (207)
+..|.++.+ ++++.|.+.+++--..- .. ...++..++..++--|.+.+. .+|+|++ .+.|++|+
T Consensus 54 v~~v~~y~~----~E~~~l~~v~~~R~~~~----~~-~~~~~~~~~~~~~~~l~~al~~l~~~~e~yP~Lka~~~~~~l~ 124 (186)
T PF04011_consen 54 VEIVKSYAK----HEKETLTKVTKARSQAN----NL-SDSADIQEFQQAEAELSQALSRLLAVVENYPELKADENFQQLM 124 (186)
T ss_dssp HHHHHHH-T----T-HHHHHHHHHHHHHHH--------H--SHHHHHHHHHHHHHHHHHHHHHHTT-HHHHH-HHHHHHH
T ss_pred HHHHHHHHH----HHHHHHHHHHHHHHhhh----hc-ccccchHHHHHHHHHHHHHHHHHHHHHHcCCccchhHHHHHHH
Confidence 445555554 67778888877643333 11 123445555566665555555 4668877 77888999
Q ss_pred HHHHHHHHhhc
Q 028535 191 ACLDELKTKLQ 201 (207)
Q Consensus 191 acL~Ev~~~~~ 201 (207)
.=++++++.+.
T Consensus 125 ~~l~~~E~~I~ 135 (186)
T PF04011_consen 125 AQLEETENRIA 135 (186)
T ss_dssp HHHHHHHHHHH
T ss_pred HHHHHHHHHHH
Confidence 98888887664
No 52
>PF06013 WXG100: Proteins of 100 residues with WXG; InterPro: IPR010310 ESAT-6 is a small protein appears to be of fundamental importance in virulence and protective immunity in Mycobacterium tuberculosis. Homologues have been detected in other Gram-positive bacterial species. It may represent a novel secretion system potentially driven by the PF01580 from PFAM domains in the YukA-like proteins []. Members of this protein family include secretion targets for type main variants of type VII secretion systems (T7SS), one found in the Actinobacteria, one found in the Firmicutes. This model was derived through iteration from PF06013 from PFAM. The best characterised member of this family is ESAT-6 from Mycobacterium tuberculosis. Members of this family usually are ~100 amino acids in length but occasionally have long C-terminal extension. ; PDB: 3FAV_A 1WA8_A 3Q4H_B 2KG7_A 2VRZ_B 2VS0_B 3OGI_A 3H6P_B 3GVM_B 3GWK_C ....
Probab=29.52 E-value=1.8e+02 Score=19.46 Aligned_cols=59 Identities=14% Similarity=0.177 Sum_probs=39.8
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccch-----hHHHHHHHHHHHHHHHHHHH
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDR-----DRFKRFSYASLELCKVYMEI 153 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~-----~~F~kya~Asl~Lc~vY~ei 153 (207)
+.|-..-.+......++....+.+-..+-.+ +++|..+. +.|.++..+...++..+-++
T Consensus 7 ~~l~~~a~~~~~~~~~l~~~~~~l~~~~~~l-~~~W~G~a~~af~~~~~~~~~~~~~~~~~L~~~ 70 (86)
T PF06013_consen 7 EQLRAAAQQLQAQADELQSQLQQLESSIDSL-QASWQGEAADAFQDKFEEWNQAFRQLNEALEEL 70 (86)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-GGGBTSSTSHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhCCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4555556666777777888888888888888 88898774 34555555555555555443
No 53
>PRK12370 invasion protein regulator; Provisional
Probab=29.45 E-value=5e+02 Score=24.90 Aligned_cols=93 Identities=12% Similarity=0.096 Sum_probs=0.0
Q ss_pred HHHHHHHhc--cchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCc
Q 028535 82 KILQQVVRS--ESSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGS 159 (207)
Q Consensus 82 kil~qiv~S--~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~ 159 (207)
+.++++... +..+..|.+++..+..+|+++.|.++..+ ++...+.++ .+...|+..|+..-.
T Consensus 427 ~~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~-~~~~~~~~~-----------~~~~~l~~~~~~~g~---- 490 (553)
T PRK12370 427 RLGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKE-ISTQEITGL-----------IAVNLLYAEYCQNSE---- 490 (553)
T ss_pred HHHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHH-hhhccchhH-----------HHHHHHHHHHhccHH----
Q ss_pred chhhHHHHHHhHHHHHhhc-CCCCcHhHHHHHHHHHH
Q 028535 160 RRELFAAEMHLKNVLKQAE-GFSDMEEFRDLHACLDE 195 (207)
Q Consensus 160 ~reL~sA~MHLk~~lKqae-~F~ete~~k~L~acL~E 195 (207)
.|.-.|+.+++..+ +.-+...+..+.++.-|
T Consensus 491 -----~a~~~l~~ll~~~~~~~~~~~~~~~~~~~~g~ 522 (553)
T PRK12370 491 -----RALPTIREFLESEQRIDNNPGLLPLVLVAHGE 522 (553)
T ss_pred -----HHHHHHHHHHHHhhHhhcCchHHHHHHHHHhh
No 54
>COG4842 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.42 E-value=1.8e+02 Score=22.10 Aligned_cols=54 Identities=13% Similarity=0.242 Sum_probs=36.7
Q ss_pred HHHHHHhCChhhhHHHHHHHHhhhccCccccc-----hhHHHHHHHHHHHHHHHHHHHhc
Q 028535 101 ARWLKNKGDLTMCSEALLKQVRSYQGSDLWKD-----RDRFKRFSYASLELCKVYMEISS 155 (207)
Q Consensus 101 Aryh~~~G~~~~a~EA~LKqVRslqgS~w~kD-----~~~F~kya~Asl~Lc~vY~ei~s 155 (207)
.+|....|.+....+.+-.++..|++ .|..+ ++-|..+-++..+||+.|-+|..
T Consensus 17 ~~~~~~~~~i~~~l~~l~s~~~~l~~-~W~G~a~~~f~~~~~~w~~~~~~l~~~l~~i~~ 75 (97)
T COG4842 17 KDYAGSSGEIQALLQDLASEIAKLQS-AWEGDAAEAFQSEQQQWNQAATELNEALEQLAD 75 (97)
T ss_pred HHHHhhhHHHHHHHHHHHHHHHHHHh-hcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34555555666666666666666666 78776 45677788888888888876554
No 55
>PRK12275 hypothetical protein; Reviewed
Probab=29.30 E-value=2.6e+02 Score=21.35 Aligned_cols=25 Identities=20% Similarity=0.369 Sum_probs=20.0
Q ss_pred CCCCcHhHHHHHHHHHHHHHhhccC
Q 028535 179 GFSDMEEFRDLHACLDELKTKLQSG 203 (207)
Q Consensus 179 ~F~ete~~k~L~acL~Ev~~~~~s~ 203 (207)
+|-+.+.|.++..-++|+.+++.++
T Consensus 87 ~~i~~~~~~~l~~~~~ei~kml~~~ 111 (116)
T PRK12275 87 GYITKEQYESILQEYDEIAKMLNGL 111 (116)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 6777788999999999998887543
No 56
>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production. It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.
Probab=28.54 E-value=2.6e+02 Score=21.13 Aligned_cols=74 Identities=19% Similarity=0.192 Sum_probs=43.6
Q ss_pred HHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHh
Q 028535 97 WGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQ 176 (207)
Q Consensus 97 WgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKq 176 (207)
...++.++...|+++.|.+...+.++- +. ....+++..|.+....|.+.+....=-+++..++.
T Consensus 65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~----------dP------~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~ 128 (146)
T PF03704_consen 65 LERLAEALLEAGDYEEALRLLQRALAL----------DP------YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLRE 128 (146)
T ss_dssp HHHHHHHHHHTT-HHHHHHHHHHHHHH----------ST------T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhccCHHHHHHHHHHHHhc----------CC------CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHH
Confidence 344566788999999999999988872 22 23456677777777677766655555555555554
Q ss_pred hcCCCCcHhH
Q 028535 177 AEGFSDMEEF 186 (207)
Q Consensus 177 ae~F~ete~~ 186 (207)
-.+.+-+++.
T Consensus 129 elg~~Ps~~~ 138 (146)
T PF03704_consen 129 ELGIEPSPET 138 (146)
T ss_dssp HHS----HHH
T ss_pred HhCcCcCHHH
Confidence 3344444443
No 57
>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]
Probab=27.69 E-value=4.6e+02 Score=29.01 Aligned_cols=116 Identities=20% Similarity=0.216 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHhhh---------------------------
Q 028535 72 ENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVRSY--------------------------- 124 (207)
Q Consensus 72 ~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVRsl--------------------------- 124 (207)
+..++++-+|++..|-- .||.+.-.++.|.+ .|+++|+|
T Consensus 1143 ~R~~vLeqvae~c~qQG-------------~Yh~AtKKfTQAGd-Kl~AMraLLKSGdt~KI~FFAn~sRqkEiYImAAN 1208 (1416)
T KOG3617|consen 1143 ERKQVLEQVAELCLQQG-------------AYHAATKKFTQAGD-KLSAMRALLKSGDTQKIRFFANTSRQKEIYIMAAN 1208 (1416)
T ss_pred HHHHHHHHHHHHHHhcc-------------chHHHHHHHhhhhh-HHHHHHHHHhcCCcceEEEEeeccccceeeeehhh
Q ss_pred --ccCccccchhHHHHH------HHHHHHHHHHHH-----HHhcCCCcchhhHHHHHHhHHHHHhhcCCCCcHhHHHHHH
Q 028535 125 --QGSDLWKDRDRFKRF------SYASLELCKVYM-----EISSSSGSRRELFAAEMHLKNVLKQAEGFSDMEEFRDLHA 191 (207)
Q Consensus 125 --qgS~w~kD~~~F~ky------a~Asl~Lc~vY~-----ei~s~~G~~reL~sA~MHLk~~lKqae~F~ete~~k~L~a 191 (207)
|+-+|++++...+.. .+|-.-|++-|- ||..-.-=-+-+-+.++--|=++|.-+.=-.+--|..||.
T Consensus 1209 yLQtlDWq~~pq~mK~I~tFYTKgqafd~LanFY~~cAqiEiee~q~ydKa~gAl~eA~kCl~ka~~k~~~~t~l~~Lq~ 1288 (1416)
T KOG3617|consen 1209 YLQTLDWQDNPQTMKDIETFYTKGQAFDHLANFYKSCAQIEIEELQTYDKAMGALEEAAKCLLKAEQKNMSTTGLDALQE 1288 (1416)
T ss_pred hhhhcccccChHHHhhhHhhhhcchhHHHHHHHHHHHHHhhHHHHhhhhHHhHHHHHHHHHHHHHHhhcchHHHHHHHHH
Q ss_pred HHHHHHHhhc
Q 028535 192 CLDELKTKLQ 201 (207)
Q Consensus 192 cL~Ev~~~~~ 201 (207)
-+..|+..++
T Consensus 1289 ~~a~vk~~l~ 1298 (1416)
T KOG3617|consen 1289 DLAKVKVQLR 1298 (1416)
T ss_pred HHHHHHHHHH
No 58
>cd07638 BAR_ACAP2 The Bin/Amphiphysin/Rvs (BAR) domain of ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2. BAR domains are dimerization, lipid binding and curvature sensing modules found in many different proteins with diverse functions. ACAP2 (ArfGAP with Coiled-coil, ANK repeat and PH domain containing protein 2), also called centaurin beta-2, is an Arf6-specific GTPase activating protein (GAP) which mediates Arf6 signaling. Arf6 is involved in the regulation of endocytosis, phagocytosis, cell adhesion and migration. ACAP2 contains an N-terminal BAR domain, followed by a Pleckstrin homology (PH) domain, an Arf GAP domain, and C-terminal ankyrin (ANK) repeats. BAR domains form dimers that bind to membranes, induce membrane bending and curvature, and may also be involved in protein-protein interactions.
Probab=27.57 E-value=3.4e+02 Score=23.68 Aligned_cols=63 Identities=13% Similarity=0.147 Sum_probs=43.2
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHhhc-CCCC----cHhHHHHHHHHHHHHH
Q 028535 130 WKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQAE-GFSD----MEEFRDLHACLDELKT 198 (207)
Q Consensus 130 ~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKqae-~F~e----te~~k~L~acL~Ev~~ 198 (207)
+.|-+..+.+-.-....|+.|+| .. +++++|....-+.|+.-. .+.+ .+.+++...+|.|+..
T Consensus 8 E~d~~~Le~~l~Kl~K~~~~~~d-ag-----~~~~~a~~~F~~~l~d~~~~~~~De~i~~~l~kF~~~l~ei~~ 75 (200)
T cd07638 8 EGDVAELELKLDKLVKLCIGMID-AG-----KAFCQANKQFMNGIRDLAQYSSKDAVIETSLTKFSDTLQEMIN 75 (200)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHH-hH-----HHHHHHHHHHHHHHHHHHHhCCcchhhHHHHHHHHHHHHHHHH
Confidence 45677778888888889999998 44 788888888777777654 3333 3445566666666543
No 59
>PF01322 Cytochrom_C_2: Cytochrome C'; InterPro: IPR002321 Cytochromes c (cytC) can be defined as electron-transfer proteins having one or several haem c groups, bound to the protein by one or, more generally, two thioether bonds involving sulphydryl groups of cysteine residues. The fifth haem iron ligand is always provided by a histidine residue. CytC possess a wide range of properties and function in a large number of different redox processes. Ambler [] recognised four classes of cytC. Class II includes the high-spin cytC' and a number of low-spin cytochromes, e.g. cyt c-556. The haem-attachment site is close to the C terminus. The cytC' are capable of binding such ligands as CO, NO or CN(-), albeit with rate and equilibrium constants 100 to 1,000,000-fold smaller than other high-spin haemoproteins []. This, coupled with its relatively low redox potential, makes it unlikely that cytC' is a terminal oxidase. Thus cytC' probably functions as an electron transfer protein []. The 3D structures of a number of cytC' have been determined. The molecule usually exists as a dimer, each monomer folding as a four-alpha-helix bundle incorporating a covalently-bound haem group at the core []. The Chromatium vinosum cytC' exhibits dimer dissociation upon ligand binding [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0020037 heme binding, 0005746 mitochondrial respiratory chain; PDB: 1BBH_A 2J9B_B 2J8W_A 1JAF_B 3ZTM_A 2XLD_A 2XL6_A 1E86_A 2YLD_A 2YKZ_A ....
Probab=27.25 E-value=1.3e+02 Score=22.96 Aligned_cols=47 Identities=21% Similarity=0.277 Sum_probs=23.4
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHhh
Q 028535 130 WKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQA 177 (207)
Q Consensus 130 ~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKqa 177 (207)
|.|.+.|..++.....-..-..+.. ..|....+..+=..|...+|.|
T Consensus 71 w~~~~~F~~~~~~~~~aa~~L~~aa-~~~d~~~~~~a~~~v~~~C~aC 117 (122)
T PF01322_consen 71 WEDPEDFKQLAQAFQKAAAALAAAA-KSGDLAAIKAAFGEVGKSCKAC 117 (122)
T ss_dssp HHTHHHHHHHHHHHHHHHHHHHHHH-HHTSHHHHHHHHHHHHHHHHHH
T ss_pred HhCHHHHHHHHHHHHHHHHHHHHHH-hcCCHHHHHHHHHHHHHHHHHH
Confidence 3455556555555554444444422 2334445555555555555555
No 60
>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=27.10 E-value=1.6e+02 Score=27.26 Aligned_cols=47 Identities=15% Similarity=0.266 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 76 LMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 76 l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
+.+++-++=.++-++++.++=|-+.++++..+|++.-|..|.-++.|
T Consensus 138 ~~~l~a~Le~~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r 184 (287)
T COG4235 138 MEALIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALR 184 (287)
T ss_pred HHHHHHHHHHHHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence 55666666677778988899999999999999999999999999998
No 61
>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=26.04 E-value=2.9e+02 Score=20.74 Aligned_cols=69 Identities=12% Similarity=0.147 Sum_probs=47.6
Q ss_pred chhhHHHHHHHHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhH
Q 028535 92 SSADMWGLYARWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLK 171 (207)
Q Consensus 92 ~~~diWgLyAryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk 171 (207)
..+.+|-.++..+...|+++.|.+...+.++... +.........++.+|++. .+...|.-.+.
T Consensus 97 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~----------~~~~~~~~~~l~~~~~~~-------g~~~~A~~~~~ 159 (234)
T TIGR02521 97 NNGDVLNNYGTFLCQQGKYEQAMQQFEQAIEDPL----------YPQPARSLENAGLCALKA-------GDFDKAEKYLT 159 (234)
T ss_pred CCHHHHHHHHHHHHHcccHHHHHHHHHHHHhccc----------cccchHHHHHHHHHHHHc-------CCHHHHHHHHH
Confidence 3478999999999999999999999988876321 111223445567777652 34556777777
Q ss_pred HHHHhh
Q 028535 172 NVLKQA 177 (207)
Q Consensus 172 ~~lKqa 177 (207)
..++..
T Consensus 160 ~~~~~~ 165 (234)
T TIGR02521 160 RALQID 165 (234)
T ss_pred HHHHhC
Confidence 776653
No 62
>PF12026 DUF3513: Domain of unknown function (DUF3513); InterPro: IPR021901 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 192 to 218 amino acids in length. This domain is found associated with PF00018 from PFAM, PF08824 from PFAM. This domain has a conserved QPP sequence motif. ; PDB: 3T6G_D 1X27_N.
Probab=25.96 E-value=3.2e+02 Score=24.28 Aligned_cols=97 Identities=21% Similarity=0.313 Sum_probs=56.9
Q ss_pred HHHHHhCChhhhHHHHHHHHhhhccCccccchhHHHHHHHHHHH-----HHHHHHHHhcCCCcchhhHHHHHHhHHHHHh
Q 028535 102 RWLKNKGDLTMCSEALLKQVRSYQGSDLWKDRDRFKRFSYASLE-----LCKVYMEISSSSGSRRELFAAEMHLKNVLKQ 176 (207)
Q Consensus 102 ryh~~~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~kya~Asl~-----Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKq 176 (207)
...---|.+..|+++++..|++=|.-.----..+|==.++.-|+ |||.-- +..-+.+|...-.||=.+||.
T Consensus 95 q~~~~~~~L~~AId~F~~sv~~nQPP~iFv~~sK~VIl~ahkLVfiGDTl~r~~~----~~dvr~~v~~~s~~Lc~~LK~ 170 (210)
T PF12026_consen 95 QCRLHFGALQKAIDAFFSSVSNNQPPKIFVAHSKFVILSAHKLVFIGDTLCREAQ----SADVRNEVLCSSNQLCDLLKT 170 (210)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHHHHHHHC------SHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhcccCCCcchhhhcCcEEEEEeeeeeeeccHHHHHhc----chHHHHHHHHHHHHHHHHHHH
Confidence 34455678899999999999876654433333344444444443 333222 122234555555566666554
Q ss_pred -------h-cCCCCcHhHHHHHHHHHHHHHhhcc
Q 028535 177 -------A-EGFSDMEEFRDLHACLDELKTKLQS 202 (207)
Q Consensus 177 -------a-e~F~ete~~k~L~acL~Ev~~~~~s 202 (207)
| ..|+.+.+..+|..+.+|+....+.
T Consensus 171 ~v~aTK~AAl~yPs~~AlqeMvd~v~eLs~~A~q 204 (210)
T PF12026_consen 171 LVLATKKAALQYPSPSALQEMVDRVKELSQHAQQ 204 (210)
T ss_dssp HHHHHHHHHHT-S-HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHHH
Confidence 3 3999999999999999998776554
No 63
>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional
Probab=24.89 E-value=1.8e+02 Score=24.24 Aligned_cols=31 Identities=16% Similarity=0.245 Sum_probs=18.3
Q ss_pred chhhHHHHHHH-HHHHhCC--hhhhHHHHHHHHh
Q 028535 92 SSADMWGLYAR-WLKNKGD--LTMCSEALLKQVR 122 (207)
Q Consensus 92 ~~~diWgLyAr-yh~~~G~--~~~a~EA~LKqVR 122 (207)
..+++|..||. ++...|+ ...|.+.+-+.++
T Consensus 105 ~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~ 138 (198)
T PRK10370 105 ENAELYAALATVLYYQAGQHMTPQTREMIDKALA 138 (198)
T ss_pred CCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHH
Confidence 34777777776 3455565 3566655555544
No 64
>TIGR01093 aroD 3-dehydroquinate dehydratase, type I. Type II 3-dehydroquinate dehydratase, designated AroQ, is described by TIGR01088.
Probab=24.89 E-value=1.1e+02 Score=26.11 Aligned_cols=20 Identities=10% Similarity=0.306 Sum_probs=16.5
Q ss_pred CCCCcHhHHHHHHHHHHHHH
Q 028535 179 GFSDMEEFRDLHACLDELKT 198 (207)
Q Consensus 179 ~F~ete~~k~L~acL~Ev~~ 198 (207)
.|..|+...+|..++.++..
T Consensus 127 ~f~~tp~~~~l~~~~~~~~~ 146 (228)
T TIGR01093 127 DFQKTPSWEEIVERLEKALS 146 (228)
T ss_pred CCCCCCCHHHHHHHHHHHHH
Confidence 78889999988888887765
No 65
>COG4047 Uncharacterized protein conserved in archaea [Function unknown]
Probab=24.81 E-value=5e+02 Score=23.83 Aligned_cols=93 Identities=24% Similarity=0.427 Sum_probs=56.2
Q ss_pred HHHhCChhhhHHHHHHHHhhhc----cCccccchhHHHHHHHHHHHHHHHHHH-HhcCCCcchhhHHHHHHhHHHHHhhc
Q 028535 104 LKNKGDLTMCSEALLKQVRSYQ----GSDLWKDRDRFKRFSYASLELCKVYME-ISSSSGSRRELFAAEMHLKNVLKQAE 178 (207)
Q Consensus 104 h~~~G~~~~a~EA~LKqVRslq----gS~w~kD~~~F~kya~Asl~Lc~vY~e-i~s~~G~~reL~sA~MHLk~~lKqae 178 (207)
-+..|...-+.=+.+-+.=||| |..||-...++=+ +.-...+|+.|.+ +-.+.|.++=+ +-+|+-+.|.+
T Consensus 33 ~~~~~~~~~vrlaianaLvSYqLtgkGEewW~eF~kyf~-~~~vr~i~ray~~fLp~s~fnrrli---eqKlrRi~ra~- 107 (243)
T COG4047 33 SKGIGSTKFVRLAIANALVSYQLTGKGEEWWWEFAKYFR-GREVRDIYRAYKEFLPNSRFNRRLI---EQKLRRIRRAE- 107 (243)
T ss_pred HhccCchHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHh-hccHHHHHHHHHHhccCCchhHHHH---HHHHHHHHHHH-
Confidence 3445555556666666666766 3357655444332 4556789999998 55667766654 34566655554
Q ss_pred CCCCc------Hh-HHHHHHHHHHHHHhhc
Q 028535 179 GFSDM------EE-FRDLHACLDELKTKLQ 201 (207)
Q Consensus 179 ~F~et------e~-~k~L~acL~Ev~~~~~ 201 (207)
+|-++ +. |.+|..++..+...++
T Consensus 108 ~fl~~L~~~~~~~yyedm~~l~~~la~~lg 137 (243)
T COG4047 108 SFLETLTEENIEVYYEDMSLLLEALARALG 137 (243)
T ss_pred HHHHHhhhhhHHHHHhhHHHHHHHHHHHhC
Confidence 45443 33 4577777777766554
No 66
>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=24.77 E-value=1.2e+02 Score=20.40 Aligned_cols=30 Identities=17% Similarity=0.078 Sum_probs=27.0
Q ss_pred hhHHHHHHHHHHHhCChhhhHHHHHHHHhh
Q 028535 94 ADMWGLYARWLKNKGDLTMCSEALLKQVRS 123 (207)
Q Consensus 94 ~diWgLyAryh~~~G~~~~a~EA~LKqVRs 123 (207)
+..+...+.-+...|+++.|.+...|.+.-
T Consensus 46 a~~~~~lg~~~~~~g~~~~A~~~~~~al~i 75 (78)
T PF13424_consen 46 ANTLNNLGECYYRLGDYEEALEYYQKALDI 75 (78)
T ss_dssp HHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence 678899999999999999999999988764
No 67
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=24.26 E-value=1.3e+02 Score=20.80 Aligned_cols=44 Identities=16% Similarity=0.160 Sum_probs=26.9
Q ss_pred HHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHH
Q 028535 75 HLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLK 119 (207)
Q Consensus 75 ~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LK 119 (207)
+-+..+.+++..--.+. .+.+|=.+|.=+...|++..|++...+
T Consensus 7 ~Ai~~~~k~~~~~~~~~-~~~~~~~la~~~~~~~~y~~A~~~~~~ 50 (84)
T PF12895_consen 7 NAIKYYEKLLELDPTNP-NSAYLYNLAQCYFQQGKYEEAIELLQK 50 (84)
T ss_dssp HHHHHHHHHHHHHCGTH-HHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHCCCCh-hHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence 33444555555333211 356666678888888888888777766
No 68
>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A.
Probab=24.15 E-value=2.5e+02 Score=19.39 Aligned_cols=28 Identities=36% Similarity=0.337 Sum_probs=21.7
Q ss_pred chhhHHHHHHHHHHHhCChhhhHHHHHH
Q 028535 92 SSADMWGLYARWLKNKGDLTMCSEALLK 119 (207)
Q Consensus 92 ~~~diWgLyAryh~~~G~~~~a~EA~LK 119 (207)
..++++-++|+=+..+|+++.|++++.|
T Consensus 56 ~~~~~~~l~a~~~~~l~~y~eAi~~l~~ 83 (84)
T PF12895_consen 56 SNPDIHYLLARCLLKLGKYEEAIKALEK 83 (84)
T ss_dssp CHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred CCHHHHHHHHHHHHHhCCHHHHHHHHhc
Confidence 3457777889999999999999988876
No 69
>PF11333 DUF3135: Protein of unknown function (DUF3135); InterPro: IPR021482 This family of proteins with unkown function appears to be restricted to Proteobacteria.
Probab=23.68 E-value=1.4e+02 Score=22.81 Aligned_cols=44 Identities=20% Similarity=0.297 Sum_probs=34.9
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHhh
Q 028535 130 WKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQA 177 (207)
Q Consensus 130 ~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKqa 177 (207)
+.|++.|+.+.+ +||...|+ +++..-++-|-+-.-||.-+++.|
T Consensus 14 ~~dPe~fe~lr~---~~~ee~I~-~a~~~~q~rL~~lQ~~Id~~~~~~ 57 (83)
T PF11333_consen 14 QNDPEAFEQLRQ---ELIEEMIE-SAPEEMQPRLRALQFHIDMQRSRC 57 (83)
T ss_pred HhCHHHHHHHHH---HHHHHHHH-hCCHHHHHHHHHHHHHHHHHHHHc
Confidence 468888887766 89999998 555556778888888999988887
No 70
>PF08938 HBS1_N: HBS1 N-terminus; InterPro: IPR015033 This domain is found in various eukaryotic HBS1-like proteins. ; PDB: 1UFZ_A 3IZQ_1.
Probab=23.40 E-value=25 Score=25.85 Aligned_cols=22 Identities=23% Similarity=0.326 Sum_probs=18.8
Q ss_pred cHhHHHHHHHHHHHHHhhccCC
Q 028535 183 MEEFRDLHACLDELKTKLQSGP 204 (207)
Q Consensus 183 te~~k~L~acL~Ev~~~~~s~~ 204 (207)
.+.+.+|.+||++|+..|+..-
T Consensus 22 ~ed~~~L~~~l~~vr~~Lg~~~ 43 (79)
T PF08938_consen 22 PEDQAQLYSCLPQVREVLGDYV 43 (79)
T ss_dssp CHHHHHHCHHCCCHHHHCCCCC
T ss_pred HHHHHHHHHHHHHHHHHHcccC
Confidence 5778899999999999998753
No 71
>PF01452 Rota_NSP4: Rotavirus non structural protein; InterPro: IPR002107 This entry contains rotaviral non-structural protein 4 (NSP4) as well as related proteins: NSP5, NS28, and NCVP5. The final steps in the assembly of rotavirus occur in the lumen of the endoplasmic reticulum (ER). Targeting of the immature inner capsid particle (ICP) to this compartment is mediated by the cytoplasmic tail of NSP4, located in the ER membrane [, ].; PDB: 2O1J_D 1G1J_B 1G1I_B 2O1K_B 3MIW_A.
Probab=23.30 E-value=56 Score=28.44 Aligned_cols=38 Identities=13% Similarity=0.230 Sum_probs=4.1
Q ss_pred HHHHHHHHH-----hCChhhhHHHHHHHHhhhccCccccchhHHH
Q 028535 98 GLYARWLKN-----KGDLTMCSEALLKQVRSYQGSDLWKDRDRFK 137 (207)
Q Consensus 98 gLyAryh~~-----~G~~~~a~EA~LKqVRslqgS~w~kD~~~F~ 137 (207)
.|++|-|.. .++.+++.|--+|+++.|+ .|.++++.|+
T Consensus 125 eLLkrI~d~Li~k~~~~idMskE~NqK~~kTl~--eW~~~~nPYe 167 (173)
T PF01452_consen 125 ELLKRIYDMLIVKPVDEIDMSKEFNQKNYKTLE--EWESGKNPYE 167 (173)
T ss_dssp HHHHHHHHHHHHT--------------------------------
T ss_pred HHHHHHHHHhccCCccccccchhhhhhccccHH--HHhcCCCCCC
Confidence 345554433 3799999999999999876 5776666654
No 72
>PRK15359 type III secretion system chaperone protein SscB; Provisional
Probab=23.20 E-value=3.6e+02 Score=20.99 Aligned_cols=51 Identities=12% Similarity=0.040 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHhccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 72 ENEHLMEFLGKILQQVVRSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 72 ~~e~l~e~~Gkil~qiv~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
...++.+.+--+-+-+.-.+..++.|--.+.-+..+|+++.|+++..+.++
T Consensus 70 ~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~ 120 (144)
T PRK15359 70 MLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMGEPGLAREAFQTAIK 120 (144)
T ss_pred HHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
No 73
>PRK11189 lipoprotein NlpI; Provisional
Probab=22.63 E-value=2.6e+02 Score=24.44 Aligned_cols=34 Identities=18% Similarity=0.268 Sum_probs=28.7
Q ss_pred hccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 89 RSESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 89 ~S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
..+..++.|-..+.++...|+++.|.++..+.++
T Consensus 93 l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~ 126 (296)
T PRK11189 93 LRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLE 126 (296)
T ss_pred cCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence 3444589999999999999999999999888876
No 74
>PRK11447 cellulose synthase subunit BcsC; Provisional
Probab=22.59 E-value=3e+02 Score=29.02 Aligned_cols=33 Identities=18% Similarity=0.298 Sum_probs=28.6
Q ss_pred ccchhhHHHHHHHHHHHhCChhhhHHHHHHHHh
Q 028535 90 SESSADMWGLYARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 90 S~~~~diWgLyAryh~~~G~~~~a~EA~LKqVR 122 (207)
.+..+++|..+|+++..+|+++.|.+...+.++
T Consensus 599 ~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~ 631 (1157)
T PRK11447 599 QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT 631 (1157)
T ss_pred CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence 445578999999999999999999998887776
No 75
>TIGR02996 rpt_mate_G_obs repeat-companion domain TIGR02996. This model describes an abundant paralogous domain of Gemmata obscuriglobus UQM 2246, a member of the Planctomycetes. The domain also occurs, although rarely, in Myxococcus xanthus DK 1622 and related species. Most member proteins have extensive repeats similar to the leucine-rich repeat, or another repeat class or region of low-complexity sequence. This domain is not repeated, and in Gemmata is usually found at the protein N-terminus.
Probab=22.40 E-value=1.4e+02 Score=20.49 Aligned_cols=32 Identities=22% Similarity=0.458 Sum_probs=25.7
Q ss_pred HHHHHHHhccchhhHHHHHHHHHHHhCChhhh
Q 028535 82 KILQQVVRSESSADMWGLYARWLKNKGDLTMC 113 (207)
Q Consensus 82 kil~qiv~S~~~~diWgLyAryh~~~G~~~~a 113 (207)
.++.-|...+....-|-.||||-.-.|+...|
T Consensus 4 all~AI~~~P~ddt~RLvYADWL~e~gdp~ra 35 (42)
T TIGR02996 4 ALLRAILAHPDDDTPRLVYADWLDEHGDPARA 35 (42)
T ss_pred HHHHHHHhCCCCcchHHHHHHHHHHcCCHHHH
Confidence 35666777877788999999999999998543
No 76
>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans. In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.
Probab=21.41 E-value=5.5e+02 Score=24.58 Aligned_cols=47 Identities=15% Similarity=0.341 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHHhccchhhHHHHH-HHHHHHhCChhhhHHHHHHHHh
Q 028535 76 LMEFLGKILQQVVRSESSADMWGLY-ARWLKNKGDLTMCSEALLKQVR 122 (207)
Q Consensus 76 l~e~~Gkil~qiv~S~~~~diWgLy-Aryh~~~G~~~~a~EA~LKqVR 122 (207)
-.+...+||+.+.+.=..+-+|-++ ||++...|+++.|++...+.+.
T Consensus 248 ~~~~a~~lL~~~~~~yP~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~ 295 (468)
T PF10300_consen 248 PLEEAEELLEEMLKRYPNSALFLFFEGRLERLKGNLEEAIESFERAIE 295 (468)
T ss_pred CHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCHHHHHHHHHHhcc
Confidence 3455667777777665667888776 6999999999999999998773
No 77
>PF10456 BAR_3_WASP_bdg: WASP-binding domain of Sorting nexin protein; InterPro: IPR019497 The C-terminal region of the Sorting nexin group of proteins appears to carry a BAR-like (Bin/amphiphysin/Rvs) domain. This domain is very diverse and the similarities with other BAR domains are few. In the Sorting nexins it is associated with IPR001683 from INTERPRO, and in combination with PX appears to be necessary to bind WASP along with p85 to form a multimeric signalling complex []. ; PDB: 2RAK_A 2RAI_A 3DYU_C 2RAJ_A 3DYT_A.
Probab=21.33 E-value=2.9e+02 Score=24.70 Aligned_cols=69 Identities=19% Similarity=0.303 Sum_probs=45.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHHHHHh-hcCCCCcHhHH--HHHHHHHHHHHhhccCC
Q 028535 134 DRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKNVLKQ-AEGFSDMEEFR--DLHACLDELKTKLQSGP 204 (207)
Q Consensus 134 ~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~~lKq-ae~F~ete~~k--~L~acL~Ev~~~~~s~~ 204 (207)
.-|.+++.|-..|+++ +++-. ......|..|--|.=.+... |+-|.+.|.+- -|..+|.|.+-++..+|
T Consensus 77 kE~qkiG~af~~Ls~a-fe~d~-~~~~~~L~~Al~~tg~~y~~Ig~l~~~Qpk~D~~pl~d~L~~Y~GlL~~~p 148 (237)
T PF10456_consen 77 KEYQKIGQAFQSLSQA-FELDQ-QQASMPLTNALKHTGDTYEEIGDLFAEQPKNDLIPLLDCLKEYRGLLSNFP 148 (237)
T ss_dssp HHHHHHHHHHHHHHHH-HTTS---SSHCHHHHHHHHHHHHHHHHHHHHHTSGGGTHHHHHHHHHHHHHHHHTHH
T ss_pred HHHHHHHHHHhHHHHH-HhcCC-chhhhHHHHHHHHHHHHHHHHHHHHHhccccchHHHHHHHHHHhhhHhhCc
Confidence 4578889999999988 43222 22345577777777666666 34677766654 56778888887776654
No 78
>PF05292 MCD: Malonyl-CoA decarboxylase (MCD); InterPro: IPR007956 This family consists of several eukaryotic malonyl-CoA decarboxylase (MLYCD) proteins. Malonyl-CoA, in addition to being an intermediate in the de novo synthesis of fatty acids, is an inhibitor of carnitine palmitoyltransferase I, the enzyme that regulates the transfer of long-chain fatty acyl-CoA into mitochondria, where they are oxidised. After exercise, malonyl-CoA decarboxylase participates with acetyl-CoA carboxylase in regulating the concentration of malonyl-CoA in liver and adipose tissue, as well as in muscle. Malonyl-CoA decarboxylase is regulated by AMP-activated protein kinase (AMPK) [].; GO: 0050080 malonyl-CoA decarboxylase activity, 0006633 fatty acid biosynthetic process; PDB: 2YGW_B.
Probab=20.96 E-value=1.7e+02 Score=28.08 Aligned_cols=55 Identities=20% Similarity=0.231 Sum_probs=39.9
Q ss_pred HHHHHhhhccCccccchhHHHHHHHHHHHHHHHHHHHhcCCCcchhhHHHHHHhHH
Q 028535 117 LLKQVRSYQGSDLWKDRDRFKRFSYASLELCKVYMEISSSSGSRRELFAAEMHLKN 172 (207)
Q Consensus 117 ~LKqVRslqgS~w~kD~~~F~kya~Asl~Lc~vY~ei~s~~G~~reL~sA~MHLk~ 172 (207)
..+.+..+...+|+.|.+.=+..-..-+.||-.|+=-.-.+|..-| --|+-||.|
T Consensus 269 ~~~~L~~l~~~~W~~d~~~~~~l~~~l~~l~a~Yl~~ek~~g~~~d-pVa~FHL~N 323 (354)
T PF05292_consen 269 ALEALLALDDPDWAEDPELSEALKPPLLRLAAHYLLNEKRRGRALD-PVARFHLGN 323 (354)
T ss_dssp THHHHH-HTTTGGGG-HHHHHHTHHHHHHHHHHHHHT-EETTEESS-HHHHHHHHT
T ss_pred hHhhhhhccCccccCCHHHHHHHHHHHHHHHHHHHHhhhcCCCcCC-chhhhccCC
Confidence 3455667888999999999899999999999999932233565444 468899987
No 79
>PF04878 Baculo_p48: Baculovirus P48 protein; InterPro: IPR006962 This family comprises the Baculovirus P48 proteins. They contain two possible membrane-spanning domains and a cysteine-rich domain that are conserved in all of the proteins. The Bombyx mori (Silk moth) nuclear polyhedrosis virus protein, O92463 from SWISSPROT, has been described as a putative DNA helicase.
Probab=20.10 E-value=2.8e+02 Score=26.95 Aligned_cols=48 Identities=33% Similarity=0.523 Sum_probs=29.7
Q ss_pred HHHHHH----HHHHHHhcCCCcchhhHHHHHHhHHHHHhhc-CCCCcHhHHHHHH
Q 028535 142 ASLELC----KVYMEISSSSGSRRELFAAEMHLKNVLKQAE-GFSDMEEFRDLHA 191 (207)
Q Consensus 142 Asl~Lc----~vY~ei~s~~G~~reL~sA~MHLk~~lKqae-~F~ete~~k~L~a 191 (207)
|+...+ |+|+|... .-..+....|+|-|||+++--- .|.+ ++|.++-.
T Consensus 277 a~~vF~GFyLR~yLEa~~-~~~~~~~~~~elElrNVCR~i~~~Y~~-~~fe~~i~ 329 (374)
T PF04878_consen 277 ASVVFIGFYLRVYLEAAP-NKDKRTCSAAELELRNVCRFIFKKYSD-EQFEEFIE 329 (374)
T ss_pred HHHHHHHHHHHHHHHhcc-cccCCCCCHHHHHHHHHHHHHHhhccH-HHHHHHHH
Confidence 456666 45556222 2233478899999999999876 5554 44443333
Done!