Query 035051
Match_columns 75
No_of_seqs 21 out of 23
Neff 2.3
Searched_HMMs 46136
Date Fri Mar 29 08:48:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035051.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035051hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07172 GRP: Glycine rich pro 86.9 0.94 2E-05 29.8 3.3 24 1-25 1-24 (95)
2 PF12732 YtxH: YtxH-like prote 84.8 6.6 0.00014 23.7 7.2 38 4-41 3-48 (74)
3 PF06388 DUF1075: Protein of u 81.0 4.7 0.0001 29.0 5.0 40 6-45 100-139 (146)
4 PF08229 SHR3_chaperone: ER me 73.0 14 0.0003 27.4 5.7 38 1-45 133-172 (196)
5 smart00786 SHR3_chaperone ER m 71.6 12 0.00027 28.0 5.2 39 1-46 133-173 (196)
6 PF11998 DUF3493: Protein of u 70.6 5.3 0.00011 25.9 2.7 24 2-25 52-75 (75)
7 PF12669 P12: Virus attachment 70.4 4.4 9.5E-05 24.5 2.2 22 5-26 1-23 (58)
8 PRK00191 tatA twin arginine tr 66.7 20 0.00044 23.8 4.9 17 22-38 29-45 (84)
9 PF14880 COX14: Cytochrome oxi 66.3 26 0.00055 20.9 5.3 20 27-46 36-55 (59)
10 PF08041 PetM: PetM family of 62.7 14 0.0003 20.8 3.1 20 2-21 7-26 (31)
11 PRK14860 tatA twin arginine tr 62.1 12 0.00025 23.6 2.9 36 12-47 13-48 (64)
12 PF14002 YniB: YniB-like prote 59.2 9.7 0.00021 28.2 2.6 41 25-65 91-132 (166)
13 TIGR02661 MauD methylamine deh 57.5 29 0.00063 23.7 4.6 19 2-20 3-21 (189)
14 PF14681 UPRTase: Uracil phosp 54.4 13 0.00029 26.3 2.6 27 21-47 14-40 (207)
15 cd04761 HTH_MerR-SF Helix-Turn 53.8 13 0.00027 19.6 1.9 22 24-45 3-24 (49)
16 PF06522 B12D: NADH-ubiquinone 51.2 21 0.00045 22.1 2.8 17 6-22 11-27 (73)
17 PRK14859 tatA twin arginine tr 49.4 32 0.00068 21.5 3.4 36 10-45 11-46 (63)
18 PF11688 DUF3285: Protein of u 46.9 33 0.00071 20.9 3.1 20 2-21 22-41 (45)
19 cd04762 HTH_MerR-trunc Helix-T 46.5 20 0.00044 18.1 1.9 22 24-45 3-24 (49)
20 smart00422 HTH_MERR helix_turn 46.4 18 0.0004 20.3 1.9 22 24-45 3-24 (70)
21 PF11712 Vma12: Endoplasmic re 46.1 36 0.00078 22.8 3.5 19 2-20 81-99 (142)
22 TIGR00985 3a0801s04tom mitocho 44.0 56 0.0012 23.3 4.4 23 18-40 23-46 (148)
23 PF13056 DUF3918: Protein of u 43.1 43 0.00093 20.0 3.1 29 10-41 10-38 (43)
24 PF08246 Inhibitor_I29: Cathep 42.1 27 0.00058 19.7 2.1 15 28-42 22-36 (58)
25 PRK14759 potassium-transportin 41.8 49 0.0011 18.4 3.0 21 1-21 1-21 (29)
26 PF06596 PsbX: Photosystem II 41.6 36 0.00079 19.9 2.6 13 2-14 4-16 (39)
27 TIGR01091 upp uracil phosphori 41.5 25 0.00053 24.9 2.3 28 20-47 16-43 (207)
28 PF10617 DUF2474: Protein of u 41.4 34 0.00074 20.0 2.5 15 8-22 17-31 (40)
29 PF07638 Sigma70_ECF: ECF sigm 40.4 32 0.0007 23.3 2.7 21 25-45 162-182 (185)
30 PF04168 Alpha-E: A predicted 40.2 29 0.00062 25.6 2.5 24 24-47 86-109 (311)
31 PF06254 DUF1019: Protein of u 39.4 35 0.00076 22.7 2.6 19 31-49 6-24 (89)
32 PF08695 Coa1: Cytochrome oxid 39.1 22 0.00047 22.6 1.5 31 10-40 7-37 (116)
33 PRK11876 petM cytochrome b6-f 38.2 34 0.00074 19.3 2.1 20 2-21 9-28 (32)
34 PF10104 Brr6_like_C_C: Di-sul 38.1 1.3E+02 0.0028 20.5 5.4 34 3-36 8-44 (135)
35 TIGR01764 excise DNA binding d 38.0 29 0.00063 17.7 1.7 23 23-45 3-25 (49)
36 PRK00129 upp uracil phosphorib 37.8 30 0.00066 24.4 2.3 28 20-47 18-45 (209)
37 PF02153 PDH: Prephenate dehyd 37.5 78 0.0017 22.7 4.4 29 19-47 220-249 (258)
38 PF00707 IF3_C: Translation in 35.7 31 0.00067 21.5 1.8 17 30-46 17-33 (88)
39 TIGR03493 cellullose_BcsF cell 35.6 1.1E+02 0.0024 19.5 4.4 32 7-44 6-37 (62)
40 TIGR00561 pntA NAD(P) transhyd 35.0 31 0.00067 28.7 2.2 20 1-20 453-472 (511)
41 PF12728 HTH_17: Helix-turn-he 34.9 34 0.00073 18.5 1.7 23 23-45 3-25 (51)
42 PF05043 Mga: Mga helix-turn-h 34.8 41 0.00088 20.0 2.2 22 23-44 39-60 (87)
43 PF09361 Phasin_2: Phasin prot 34.4 97 0.0021 18.0 5.9 47 14-60 13-59 (102)
44 TIGR01710 typeII_sec_gspG gene 34.3 1.4E+02 0.003 19.7 5.8 20 25-44 32-51 (134)
45 smart00848 Inhibitor_I29 Cathe 34.1 42 0.00092 18.2 2.1 14 29-42 23-36 (57)
46 PLN02541 uracil phosphoribosyl 33.7 39 0.00085 25.4 2.4 27 21-47 49-75 (244)
47 TIGR02848 spore_III_AC stage I 33.6 46 0.00099 21.3 2.4 25 5-29 4-28 (64)
48 TIGR01185 devC DevC protein. T 32.4 90 0.002 23.9 4.2 38 5-42 14-51 (380)
49 PF10518 TAT_signal: TAT (twin 32.3 65 0.0014 16.6 2.5 15 5-19 6-20 (26)
50 PF03452 Anp1: Anp1; InterPro 32.3 1.7 3.6E-05 33.5 -5.1 21 11-31 245-265 (269)
51 PF06729 CENP-R: Kinetochore c 30.9 89 0.0019 22.7 3.8 26 16-41 60-88 (139)
52 PRK09424 pntA NAD(P) transhydr 30.8 40 0.00087 27.8 2.2 20 1-20 453-472 (509)
53 PF09849 DUF2076: Uncharacteri 30.5 58 0.0013 24.8 2.9 28 3-34 138-165 (247)
54 KOG4762 DNA replication factor 30.4 36 0.00077 28.9 1.9 15 34-48 478-492 (498)
55 PF07332 DUF1469: Protein of u 30.1 1.3E+02 0.0028 18.9 4.1 25 20-44 93-120 (121)
56 PF11076 YbhQ: Putative inner 29.9 42 0.0009 24.3 1.9 25 4-28 98-127 (135)
57 TIGR01817 nifA Nif-specific re 29.9 2.2E+02 0.0049 22.5 6.1 40 5-44 143-182 (534)
58 PF00957 Synaptobrevin: Synapt 28.8 90 0.0019 18.9 3.1 22 20-41 39-60 (89)
59 smart00150 SPEC Spectrin repea 28.7 56 0.0012 18.3 2.0 16 31-46 3-18 (101)
60 MTH00021 ND6 NADH dehydrogenas 28.3 52 0.0011 23.4 2.2 19 4-22 148-166 (188)
61 PF09607 BrkDBD: Brinker DNA-b 28.2 48 0.001 20.7 1.8 23 25-47 29-51 (58)
62 PF04235 DUF418: Protein of un 27.8 61 0.0013 21.3 2.3 12 1-12 93-104 (163)
63 PF13623 SurA_N_2: SurA N-term 27.8 35 0.00075 23.6 1.2 25 6-31 10-34 (145)
64 PF07175 Osteoregulin: Osteore 26.9 17 0.00037 26.9 -0.4 35 25-66 48-88 (163)
65 PF10118 Metal_hydrol: Predict 26.5 79 0.0017 23.4 2.9 23 1-23 184-206 (253)
66 PRK08476 F0F1 ATP synthase sub 26.4 99 0.0021 20.8 3.2 19 3-21 7-25 (141)
67 PRK15058 cytochrome b562; Prov 26.1 2.4E+02 0.0052 19.8 7.5 59 7-66 8-75 (128)
68 PF14110 DUF4282: Domain of un 26.0 1.8E+02 0.0038 18.3 5.7 36 4-39 50-87 (90)
69 PF08496 Peptidase_S49_N: Pept 25.5 1.7E+02 0.0036 20.7 4.3 24 24-47 44-67 (155)
70 PHA00649 hypothetical protein 25.3 54 0.0012 22.0 1.7 20 24-43 32-51 (83)
71 PRK01371 sec-independent trans 25.2 1.3E+02 0.0029 21.3 3.7 34 11-44 12-45 (137)
72 COG0290 InfC Translation initi 25.1 38 0.00083 25.3 1.1 12 35-46 108-119 (176)
73 PRK03625 tatE twin arginine tr 25.1 1.8E+02 0.004 18.3 4.0 34 12-45 13-46 (67)
74 PF01843 DIL: DIL domain; Int 25.0 36 0.00077 21.3 0.8 28 18-45 18-47 (105)
75 KOG1542 Cysteine proteinase Ca 24.7 59 0.0013 26.8 2.1 17 28-45 92-108 (372)
76 PRK03100 sec-independent trans 24.7 1.8E+02 0.004 20.5 4.4 24 22-45 31-54 (136)
77 TIGR02205 septum_zipA cell div 24.7 49 0.0011 25.6 1.6 16 5-20 3-18 (284)
78 PF13430 DUF4112: Domain of un 24.6 46 0.001 22.1 1.3 12 32-43 95-106 (106)
79 PF03229 Alpha_GJ: Alphavirus 24.4 1.2E+02 0.0026 21.8 3.4 27 8-36 96-122 (126)
80 TIGR03235 DNA_S_dndA cysteine 24.2 2.5E+02 0.0053 20.1 5.0 36 9-44 244-279 (353)
81 PRK13701 psiB plasmid SOS inhi 24.2 62 0.0014 23.6 2.0 17 22-38 19-35 (144)
82 PF09972 DUF2207: Predicted me 24.0 2.5E+02 0.0055 20.8 5.2 22 24-45 455-476 (511)
83 PF04418 DUF543: Domain of unk 23.8 1.3E+02 0.0027 19.3 3.2 21 2-22 25-50 (75)
84 PF12769 DUF3814: Domain of un 23.7 76 0.0016 21.1 2.2 20 1-20 30-49 (87)
85 PF12597 DUF3767: Protein of u 23.7 34 0.00074 23.2 0.5 23 7-29 48-70 (118)
86 PF00435 Spectrin: Spectrin re 23.7 89 0.0019 17.4 2.2 19 29-47 4-22 (105)
87 PRK00708 sec-independent trans 23.6 1.8E+02 0.0038 22.0 4.3 16 2-19 5-20 (209)
88 cd00086 homeodomain Homeodomai 23.5 1.1E+02 0.0024 16.2 2.5 24 22-45 28-51 (59)
89 PLN03098 LPA1 LOW PSII ACCUMUL 23.2 84 0.0018 26.3 2.8 29 2-30 238-266 (453)
90 COG1845 CyoC Heme/copper-type 22.9 1.7E+02 0.0038 21.6 4.2 32 12-43 77-110 (209)
91 PF15466 DUF4635: Domain of un 22.8 59 0.0013 23.6 1.6 14 34-47 84-97 (135)
92 PF04995 CcmD: Heme exporter p 22.8 1.6E+02 0.0034 16.6 4.8 24 3-26 8-31 (46)
93 PF13551 HTH_29: Winged helix- 22.7 99 0.0021 18.3 2.4 22 24-45 15-36 (112)
94 PF13384 HTH_23: Homeodomain-l 22.6 98 0.0021 16.5 2.2 22 23-44 19-40 (50)
95 PF04277 OAD_gamma: Oxaloaceta 22.6 1.1E+02 0.0023 18.2 2.5 13 6-18 5-17 (79)
96 PF11026 DUF2721: Protein of u 22.3 2.3E+02 0.0049 18.9 4.3 28 6-33 101-128 (130)
97 PTZ00234 variable surface prot 22.0 81 0.0017 25.8 2.4 19 4-22 365-383 (433)
98 PRK07417 arogenate dehydrogena 21.6 1.3E+02 0.0029 21.6 3.2 23 23-45 236-258 (279)
99 KOG0091 GTPase Rab39, small G 21.4 67 0.0014 24.8 1.8 14 32-45 94-107 (213)
100 PF10658 DUF2484: Protein of u 21.3 1.8E+02 0.0039 19.1 3.5 18 8-25 53-70 (77)
101 PF14654 Epiglycanin_C: Mucin, 21.2 1.2E+02 0.0025 21.3 2.8 18 3-20 18-35 (106)
102 cd00615 Orn_deC_like Ornithine 21.2 3.2E+02 0.0068 19.5 5.3 34 10-43 260-293 (294)
103 PF13411 MerR_1: MerR HTH fami 21.1 83 0.0018 17.6 1.7 22 24-45 3-24 (69)
104 PRK11119 proX glycine betaine 21.0 2E+02 0.0044 22.0 4.3 43 3-45 277-326 (331)
105 PF00672 HAMP: HAMP domain; I 20.9 36 0.00079 18.8 0.2 20 8-27 7-26 (70)
106 PRK10874 cysteine sulfinate de 20.8 3.4E+02 0.0073 19.9 5.2 36 5-44 275-310 (401)
107 PF01765 RRF: Ribosome recycli 20.6 1.5E+02 0.0032 20.3 3.2 23 20-42 95-117 (165)
108 cd00613 GDC-P Glycine cleavage 20.6 3.4E+02 0.0073 19.6 5.5 24 21-44 303-326 (398)
109 CHL00114 psbX photosystem II p 20.6 1.4E+02 0.0029 17.6 2.6 13 2-14 4-16 (39)
110 TIGR03812 tyr_de_CO2_Arch tyro 20.6 3.3E+02 0.0071 19.4 5.5 24 21-44 283-306 (373)
111 PTZ00203 cathepsin L protease; 20.5 79 0.0017 24.6 2.0 15 28-42 59-73 (348)
112 PF14574 DUF4445: Domain of un 20.3 55 0.0012 26.4 1.2 29 10-38 366-394 (412)
113 PF09722 DUF2384: Protein of u 20.3 1.1E+02 0.0024 17.1 2.2 20 25-45 2-21 (54)
114 PF00376 MerR: MerR family reg 20.3 1.1E+02 0.0024 16.7 2.1 22 24-45 2-23 (38)
115 PF11188 DUF2975: Protein of u 20.2 2.1E+02 0.0045 17.7 3.6 19 22-40 48-66 (136)
116 COG1377 FlhB Flagellar biosynt 20.2 2E+02 0.0043 23.4 4.3 42 3-44 33-74 (363)
117 PRK08541 flagellin; Validated 20.1 85 0.0019 23.6 2.1 16 7-22 17-32 (211)
No 1
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=86.92 E-value=0.94 Score=29.83 Aligned_cols=24 Identities=33% Similarity=0.429 Sum_probs=18.1
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhHH
Q 035051 1 MALTNFILTVAGVSAVVLLLRSDVK 25 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLlrsDVr 25 (75)
|| |=.+|-++.+-|++||+.|||-
T Consensus 1 Ma-SK~~llL~l~LA~lLlisSeva 24 (95)
T PF07172_consen 1 MA-SKAFLLLGLLLAALLLISSEVA 24 (95)
T ss_pred Cc-hhHHHHHHHHHHHHHHHHhhhh
Confidence 77 4445556678889999999884
No 2
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=84.76 E-value=6.6 Score=23.70 Aligned_cols=38 Identities=24% Similarity=0.265 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHH--------HHHhHHHhHHHHHHhHHHHHHH
Q 035051 4 TNFILTVAGVSAVVLL--------LRSDVKQSASIFRRNVKHIRNW 41 (75)
Q Consensus 4 TNFilTvagV~Av~lL--------lrsDVrqS~a~fRRN~rhIR~W 41 (75)
.-|++.++.-+++.+| +|.+|+..+.-++.++..+..=
T Consensus 3 ~g~l~Ga~~Ga~~glL~aP~sG~e~R~~l~~~~~~~~~~~~~~~~~ 48 (74)
T PF12732_consen 3 LGFLAGAAAGAAAGLLFAPKSGKETREKLKDKAEDLKDKAKDLYEE 48 (74)
T ss_pred HHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555544455555 3777777777777766555444
No 3
>PF06388 DUF1075: Protein of unknown function (DUF1075); InterPro: IPR009432 This family consists of several eukaryotic proteins of unknown function.
Probab=81.00 E-value=4.7 Score=28.99 Aligned_cols=40 Identities=28% Similarity=0.457 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHHH
Q 035051 6 FILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 6 FilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEEe 45 (75)
+.||++|-.++++.=+..+++--+++.+|+..=..|=||.
T Consensus 100 i~lTiiGc~~mv~sGK~aa~r~eslt~~Nle~~~~~rEea 139 (146)
T PF06388_consen 100 IALTIIGCIAMVISGKRAAKRGESLTKQNLEWKARWREEA 139 (146)
T ss_pred HHHHHHHHHHHHHHHhhHhhccCcHHHHhHHHHHHHhHHH
Confidence 3678888888888889999999999999999999998884
No 4
>PF08229 SHR3_chaperone: ER membrane protein SH3 ; InterPro: IPR013248 This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) []. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=72.99 E-value=14 Score=27.44 Aligned_cols=38 Identities=29% Similarity=0.523 Sum_probs=24.2
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhHHHhHHHH--HHhHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLLRSDVKQSASIF--RRNVKHIRNWLEEE 45 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLlrsDVrqS~a~f--RRN~rhIR~WlEEe 45 (75)
||=+|.|+.++-+|-.+| |++... |.--+..+.+.+||
T Consensus 133 lAASn~Ii~~~LvGVLvL-------QaG~~YAe~~~~~~~~~~~~~e 172 (196)
T PF08229_consen 133 LAASNTIIALVLVGVLVL-------QAGQWYAERKDAKELEEFEKEE 172 (196)
T ss_pred HHHhhHHHHHHHHHHHHH-------HhhHHHHhhhhHHHHHHHHHHH
Confidence 466899999888876654 555543 33344556666666
No 5
>smart00786 SHR3_chaperone ER membrane protein SH3. This family of proteins are membrane localised chaperones that are required for correct plasma membrane localisation of amino acid permeases (AAPs) PUBMED:15623581. Shr3 prevents AAPs proteins from aggregating and assists in their correct folding. In the absence of Shr3, AAPs are retained in the ER.
Probab=71.65 E-value=12 Score=28.03 Aligned_cols=39 Identities=31% Similarity=0.436 Sum_probs=23.8
Q ss_pred CchHHHHHHHHHHHHHHHHHHHhHHHhHHHH--HHhHHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLLRSDVKQSASIF--RRNVKHIRNWLEEES 46 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLlrsDVrqS~a~f--RRN~rhIR~WlEEe~ 46 (75)
||=+|.|+.++-+|-.+| |.+.-. |.--+..+.|.+||.
T Consensus 133 lAASn~Il~~vLvGVL~L-------QaG~wYAer~~~~~~~~~~~~~~ 173 (196)
T smart00786 133 LAASNTILLFVLVGVLVL-------QAGLWYAERKDAKQKEEFAAEER 173 (196)
T ss_pred HhccchhHHHHHHHHHHH-------HhhHHHHHHhHHHHHHHHHHHHH
Confidence 456899998887775544 444443 333455666666653
No 6
>PF11998 DUF3493: Protein of unknown function (DUF3493); InterPro: IPR021883 This family of proteins is functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 79 to 331 amino acids in length.
Probab=70.59 E-value=5.3 Score=25.88 Aligned_cols=24 Identities=33% Similarity=0.517 Sum_probs=21.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHhHH
Q 035051 2 ALTNFILTVAGVSAVVLLLRSDVK 25 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLlrsDVr 25 (75)
++.||.+-+.+|+..+.|++.|-|
T Consensus 52 ~l~nlaI~igava~~~~L~~~d~k 75 (75)
T PF11998_consen 52 ALPNLAIQIGAVALFAFLFRWDRK 75 (75)
T ss_pred HhhhHhHHHHHHHHHHHHHHHhcC
Confidence 578999999999999999999854
No 7
>PF12669 P12: Virus attachment protein p12 family
Probab=70.41 E-value=4.4 Score=24.52 Aligned_cols=22 Identities=23% Similarity=0.394 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHH-HHHhHHH
Q 035051 5 NFILTVAGVSAVVLL-LRSDVKQ 26 (75)
Q Consensus 5 NFilTvagV~Av~lL-lrsDVrq 26 (75)
|+|+.+..+++++++ +|+=+|+
T Consensus 1 tiII~~Ii~~~~~~v~~r~~~k~ 23 (58)
T PF12669_consen 1 TIIIGIIILAAVAYVAIRKFIKD 23 (58)
T ss_pred CeeHHHHHHHHHHHHHHHHHHHH
Confidence 567777777777764 4655443
No 8
>PRK00191 tatA twin arginine translocase protein A; Provisional
Probab=66.65 E-value=20 Score=23.78 Aligned_cols=17 Identities=29% Similarity=0.569 Sum_probs=8.9
Q ss_pred HhHHHhHHHHHHhHHHH
Q 035051 22 SDVKQSASIFRRNVKHI 38 (75)
Q Consensus 22 sDVrqS~a~fRRN~rhI 38 (75)
+++-++...||+-++.+
T Consensus 29 r~lGk~ir~FK~~~~~~ 45 (84)
T PRK00191 29 RSIGRSMRIFKSEVKEM 45 (84)
T ss_pred HHHHHHHHHHHHHHhcc
Confidence 45555555555544444
No 9
>PF14880 COX14: Cytochrome oxidase c assembly
Probab=66.27 E-value=26 Score=20.93 Aligned_cols=20 Identities=30% Similarity=0.566 Sum_probs=15.7
Q ss_pred hHHHHHHhHHHHHHHHHHHH
Q 035051 27 SASIFRRNVKHIRNWLEEES 46 (75)
Q Consensus 27 S~a~fRRN~rhIR~WlEEe~ 46 (75)
...++.+|=++-..|.|+|.
T Consensus 36 ~y~~~~~~r~~~~~~~e~~~ 55 (59)
T PF14880_consen 36 VYSYFKYNRRRRAEWIEREK 55 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 67788888888888988863
No 10
>PF08041 PetM: PetM family of cytochrome b6f complex subunit 7; InterPro: IPR012595 This family consists of the PetM family of cytochrome b6f complex subunit IV. The cytochrome b6f complex consists of 7 subunits and contains 2 beta haem's and 1 chlorophyll alpha per cytochrome f. It is highly active in transferring electrons from decylplastoquinol to oxidised plastocyanin [].; GO: 0009512 cytochrome b6f complex; PDB: 2ZT9_F 1Q90_M 2E76_F 2E75_F 2E74_F 2D2C_S 1VF5_S.
Probab=62.72 E-value=14 Score=20.76 Aligned_cols=20 Identities=30% Similarity=0.464 Sum_probs=17.1
Q ss_pred chHHHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLLLR 21 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLlr 21 (75)
|..-|++|.+|++-.++|||
T Consensus 7 a~i~~~lvlvGla~Gf~LLk 26 (31)
T PF08041_consen 7 AVICFGLVLVGLALGFVLLK 26 (31)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhe
Confidence 45568999999999999997
No 11
>PRK14860 tatA twin arginine translocase protein A; Provisional
Probab=62.06 E-value=12 Score=23.55 Aligned_cols=36 Identities=17% Similarity=0.194 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 12 GVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 12 gV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
++.|++++=-..+-+-+.-+-+=+|..|..+.|+..
T Consensus 13 ~vIalllfGp~kLP~l~r~lGk~ir~fkk~~~~~~~ 48 (64)
T PRK14860 13 LVIALVVFGPAKLPQLGQALGGAIRNFKKASNEEDV 48 (64)
T ss_pred HHHHHhhcCchHHHHHHHHHHHHHHHHHHHcccccc
Confidence 444555555577888888888888888888887644
No 12
>PF14002 YniB: YniB-like protein
Probab=59.18 E-value=9.7 Score=28.21 Aligned_cols=41 Identities=29% Similarity=0.434 Sum_probs=32.3
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHH-HHHHHhhhcCcccccccC
Q 035051 25 KQSASIFRRNVKHIRNWLEEEST-AASKAAENIKPKELETKI 65 (75)
Q Consensus 25 rqS~a~fRRN~rhIR~WlEEe~~-aaska~~~~~pKel~~~~ 65 (75)
.-|++-..|-+||||.=+||+.- ..+|..+.-...+||+++
T Consensus 91 ~aSG~rm~rqvk~ire~IEdqlIlE~akG~~g~treqlE~~i 132 (166)
T PF14002_consen 91 QASGARMSRQVKFIREGIEDQLILEQAKGSEGRTREQLEERI 132 (166)
T ss_pred HHhhhHHHHHHHHHHHhHHHHHHHHHhcCCccccHHHHHhcc
Confidence 45777788889999999999865 556666666778888876
No 13
>TIGR02661 MauD methylamine dehydrogenase accessory protein MauD. This protein, MauD, appears critical to proper formation of the small subunit of methylamine dehydrogenase, which has both an unusual tryptophan tryptophylquinone cofactor and multiple disulfide bonds. MauD shares sequence similarity, including a CPxC motif, with a number of thiol:disulfide interchange proteins. In MauD mutants, the small subunit apparently does not form properly and is rapidly degraded.
Probab=57.49 E-value=29 Score=23.73 Aligned_cols=19 Identities=32% Similarity=0.370 Sum_probs=14.8
Q ss_pred chHHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLl 20 (75)
.++|+||.++.++.+++++
T Consensus 3 ~~~~~~~~~~~~~~~~~~~ 21 (189)
T TIGR02661 3 IASNVLLWLAFLGLAVLML 21 (189)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5789999988777776665
No 14
>PF14681 UPRTase: Uracil phosphoribosyltransferase; PDB: 1V9S_B 1UPF_A 1UPU_D 1JLR_B 1BD4_A 1BD3_C 1JLS_D 1XTV_C 1XTU_H 3G6W_C ....
Probab=54.44 E-value=13 Score=26.26 Aligned_cols=27 Identities=30% Similarity=0.389 Sum_probs=22.8
Q ss_pred HHhHHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 21 RSDVKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 21 rsDVrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
-+|.+-+...||+++..|-.||-||..
T Consensus 14 LRd~~t~~~~Fr~~~~rl~~lL~~eal 40 (207)
T PF14681_consen 14 LRDRNTSRAEFRRYLDRLGRLLAEEAL 40 (207)
T ss_dssp HHSTTS-HHHHHHHHHHHHHHHHHHHT
T ss_pred HhCCCCChHHHHHHHHHHHHHHHHHHH
Confidence 368888999999999999999999843
No 15
>cd04761 HTH_MerR-SF Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily. Helix-turn-helix (HTH) transcription regulator MerR superfamily, N-terminal domain. The MerR family transcription regulators have been shown to mediate responses to stress including exposure to heavy metals, drugs, or oxygen radicals in eubacterial and some archaeal species. They regulate transcription of multidrug/metal ion transporter genes and oxidative stress regulons by reconfiguring the spacer between the -35 and -10 promoter elements. A typical MerR regulator is comprised of two distinct domains that harbor the regulatory (effector-binding) site and the active (DNA-binding) site. Their N-terminal domains are homologous and contain a DNA-binding winged HTH motif, while the C-terminal domains are often dissimilar and bind specific coactivator molecules such as metal ions, drugs, and organic substrates.
Probab=53.79 E-value=13 Score=19.60 Aligned_cols=22 Identities=9% Similarity=0.077 Sum_probs=18.0
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
+++.+.++-=..++||.|.+++
T Consensus 3 ~~e~a~~~gv~~~tlr~~~~~g 24 (49)
T cd04761 3 IGELAKLTGVSPSTLRYYERIG 24 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHCC
Confidence 4567788888899999998775
No 16
>PF06522 B12D: NADH-ubiquinone reductase complex 1 MLRQ subunit; InterPro: IPR010530 The MLRQ subunit of mitochondrial NADH-ubiquinone reductase complex I is nuclear [] and is found in plants [], insects, fungi and higher metazoans []. It appears to act within the membrane and, in mammals, is highly expressed in muscle and neural tissue, indicative of a role in ATP generation [].
Probab=51.24 E-value=21 Score=22.11 Aligned_cols=17 Identities=35% Similarity=0.266 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHHHHHH
Q 035051 6 FILTVAGVSAVVLLLRS 22 (75)
Q Consensus 6 FilTvagV~Av~lLlrs 22 (75)
+++++|+++|+..+.|.
T Consensus 11 ~~vg~a~~~a~~~~~r~ 27 (73)
T PF06522_consen 11 VIVGVAVGGATFYLYRL 27 (73)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 46778888888877774
No 17
>PRK14859 tatA twin arginine translocase protein A; Provisional
Probab=49.36 E-value=32 Score=21.47 Aligned_cols=36 Identities=11% Similarity=0.175 Sum_probs=24.7
Q ss_pred HHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHHH
Q 035051 10 VAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 10 vagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEEe 45 (75)
+.++.+++++=.+.+-+-++-+-+=+|..|....+.
T Consensus 11 iIlvv~LlvfGp~kLP~l~r~lGk~i~~frk~~~~~ 46 (63)
T PRK14859 11 VILVIVLIVFGAGKLPEIGGGLGKSIKNFKKATSEK 46 (63)
T ss_pred HHHHHHHHHhCchHHHHHHHHHHHHHHHHHHHhccc
Confidence 344555555556677777877888888888777664
No 18
>PF11688 DUF3285: Protein of unknown function (DUF3285); InterPro: IPR021702 This family of proteins with unknown function appears to be restricted to Cyanobacteria.
Probab=46.91 E-value=33 Score=20.87 Aligned_cols=20 Identities=30% Similarity=0.381 Sum_probs=16.4
Q ss_pred chHHHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLLLR 21 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLlr 21 (75)
.|..|.||.+|+.++..++.
T Consensus 22 SL~HF~LT~~gll~~lv~la 41 (45)
T PF11688_consen 22 SLFHFGLTAVGLLGFLVGLA 41 (45)
T ss_pred chhHHHHHHHHHHHHHHHHH
Confidence 36679999999999887764
No 19
>cd04762 HTH_MerR-trunc Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins. Proteins in this family mostly have a truncated helix-turn-helix (HTH) MerR-like domain. They lack a portion of the C-terminal region, called Wing 2 and the long dimerization helix that is typically present in MerR-like proteins. These truncated domains are found in response regulator receiver (REC) domain proteins (i.e., CheY), cytosine-C5 specific DNA methylases, IS607 transposase-like proteins, and RacA, a bacterial protein that anchors chromosomes to cell poles.
Probab=46.46 E-value=20 Score=18.07 Aligned_cols=22 Identities=23% Similarity=0.563 Sum_probs=18.7
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
+.+.+.+|.-.-++|+.|..++
T Consensus 3 ~~e~a~~lgvs~~tl~~~~~~g 24 (49)
T cd04762 3 TKEAAELLGVSPSTLRRWVKEG 24 (49)
T ss_pred HHHHHHHHCcCHHHHHHHHHcC
Confidence 5677888988999999999875
No 20
>smart00422 HTH_MERR helix_turn_helix, mercury resistance.
Probab=46.36 E-value=18 Score=20.26 Aligned_cols=22 Identities=14% Similarity=0.209 Sum_probs=17.8
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
+++.+.++.-+.++||.|.+++
T Consensus 3 ~~eva~~~gvs~~tlr~~~~~g 24 (70)
T smart00422 3 IGEVAKLAGVSVRTLRYYERIG 24 (70)
T ss_pred HHHHHHHHCcCHHHHHHHHHCC
Confidence 4567788888999999997754
No 21
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=46.07 E-value=36 Score=22.85 Aligned_cols=19 Identities=16% Similarity=0.114 Sum_probs=15.3
Q ss_pred chHHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLl 20 (75)
..-||++||++++.+....
T Consensus 81 ~v~Nilvsv~~~~~~~~~~ 99 (142)
T PF11712_consen 81 TVFNILVSVFAVFFAGWYW 99 (142)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3569999999999888744
No 22
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=43.98 E-value=56 Score=23.32 Aligned_cols=23 Identities=17% Similarity=0.361 Sum_probs=16.9
Q ss_pred HHHHHh-HHHhHHHHHHhHHHHHH
Q 035051 18 LLLRSD-VKQSASIFRRNVKHIRN 40 (75)
Q Consensus 18 lLlrsD-VrqS~a~fRRN~rhIR~ 40 (75)
+..-=| =|+|.--|||++|.=|.
T Consensus 23 YciYFD~KRR~dPdFRkkLr~rr~ 46 (148)
T TIGR00985 23 YAIYFDYKRRNDPDFRKKLRRRRK 46 (148)
T ss_pred HHHhhhhhhccCHHHHHHHHHHHH
Confidence 344445 37899999999988775
No 23
>PF13056 DUF3918: Protein of unknown function (DUF3918)
Probab=43.10 E-value=43 Score=19.96 Aligned_cols=29 Identities=17% Similarity=0.342 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHH
Q 035051 10 VAGVSAVVLLLRSDVKQSASIFRRNVKHIRNW 41 (75)
Q Consensus 10 vagV~Av~lLlrsDVrqS~a~fRRN~rhIR~W 41 (75)
..|+|++++-+. +++.=+=+||+|.+|.=
T Consensus 10 a~GaG~aAy~~A---~~n~m~n~R~MKKmrkr 38 (43)
T PF13056_consen 10 AFGAGAAAYQMA---QRNDMMNKRQMKKMRKR 38 (43)
T ss_pred HHhHHHHHHHHH---HHccccchHHHHHHHHH
Confidence 345555555543 34445668888888764
No 24
>PF08246 Inhibitor_I29: Cathepsin propeptide inhibitor domain (I29); InterPro: IPR013201 Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a simple noncovalent lock and key mechanism; while yet others use a conformational change-based trapping mechanism that depends on their structural and thermodynamic properties. This entry represents a peptidase inhibitor domain, which belongs to MEROPS peptidase inhibitor family I29. The domain is also found at the N terminus of a variety of peptidase precursors that belong to MEROPS peptidase subfamily C1A; these include cathepsin L, papain, and procaricain (P10056 from SWISSPROT) []. It forms an alpha-helical domain that runs through the substrate-binding site, preventing access. Removal of this region by proteolytic cleavage results in activation of the enzyme. This domain is also found, in one or more copies, in a variety of cysteine peptidase inhibitors such as salarin [].; PDB: 3QT4_A 3QJ3_A 2C0Y_A 2L95_A 1CJL_A 1CS8_A 7PCK_A 1BY8_A 1PCI_A 2O6X_A ....
Probab=42.09 E-value=27 Score=19.66 Aligned_cols=15 Identities=27% Similarity=0.519 Sum_probs=13.1
Q ss_pred HHHHHHhHHHHHHHH
Q 035051 28 ASIFRRNVKHIRNWL 42 (75)
Q Consensus 28 ~a~fRRN~rhIR~Wl 42 (75)
-.+|++|++.|..+=
T Consensus 22 ~~~F~~N~~~I~~~N 36 (58)
T PF08246_consen 22 FAIFKENLRRIEEHN 36 (58)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHh
Confidence 478999999999886
No 25
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=41.82 E-value=49 Score=18.39 Aligned_cols=21 Identities=14% Similarity=0.180 Sum_probs=16.3
Q ss_pred CchHHHHHHHHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLLR 21 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLlr 21 (75)
|.|-+.+..+++++..++|+-
T Consensus 1 m~~~~~l~~~va~~L~vYL~~ 21 (29)
T PRK14759 1 MILDYSLAGAVSLGLLIYLTY 21 (29)
T ss_pred CcHHHHHHHHHHHHHHHHHHH
Confidence 777788888888888887753
No 26
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=41.64 E-value=36 Score=19.91 Aligned_cols=13 Identities=31% Similarity=0.664 Sum_probs=8.9
Q ss_pred chHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVS 14 (75)
Q Consensus 2 AlTNFilTvagV~ 14 (75)
.|.|||.....-+
T Consensus 4 SL~nfl~Sl~aG~ 16 (39)
T PF06596_consen 4 SLSNFLLSLVAGA 16 (39)
T ss_dssp HHHHHHHHHHHHH
T ss_pred hHHHHHHHHHhhh
Confidence 3789998765544
No 27
>TIGR01091 upp uracil phosphoribosyltransferase. that includes uracil phosphoribosyltransferase, uridine kinases, and other, uncharacterized proteins.
Probab=41.50 E-value=25 Score=24.94 Aligned_cols=28 Identities=25% Similarity=0.332 Sum_probs=24.1
Q ss_pred HHHhHHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 20 LRSDVKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 20 lrsDVrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
.-+|.+-+...||++++.|-.||-+|..
T Consensus 16 ~lRd~~t~~~~Fr~~~~rl~~~l~~ea~ 43 (207)
T TIGR01091 16 LLRDKNTDTKEFRELLRELGRLLAYEAT 43 (207)
T ss_pred HHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3468888999999999999999999843
No 28
>PF10617 DUF2474: Protein of unknown function (DUF2474); InterPro: IPR018895 This family of short proteins has no known function.
Probab=41.44 E-value=34 Score=20.01 Aligned_cols=15 Identities=27% Similarity=0.450 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHH
Q 035051 8 LTVAGVSAVVLLLRS 22 (75)
Q Consensus 8 lTvagV~Av~lLlrs 22 (75)
..|+++++|+++||-
T Consensus 17 ~SV~aL~~va~~~Rl 31 (40)
T PF10617_consen 17 ASVLALGVVAMLFRL 31 (40)
T ss_pred HHHHHHHHHHHHHHH
Confidence 468889999999874
No 29
>PF07638 Sigma70_ECF: ECF sigma factor
Probab=40.41 E-value=32 Score=23.35 Aligned_cols=21 Identities=33% Similarity=0.627 Sum_probs=18.2
Q ss_pred HHhHHHHHHhHHHHHHHHHHH
Q 035051 25 KQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 25 rqS~a~fRRN~rhIR~WlEEe 45 (75)
--|-+..+|-++.+|.||..+
T Consensus 162 giS~~tV~r~l~~aR~~l~~~ 182 (185)
T PF07638_consen 162 GISERTVRRRLRRARAWLRRE 182 (185)
T ss_pred CcCHHHHHHHHHHHHHHHHHH
Confidence 457788999999999999876
No 30
>PF04168 Alpha-E: A predicted alpha-helical domain with a conserved ER motif.; InterPro: IPR007296 This is a domain of unknown function. It sometimes occurs singly or as the C-terminal domain, in combination with another two domains of unknown function: (IPR007297 from INTERPRO) and (IPR007302 from INTERPRO).
Probab=40.19 E-value=29 Score=25.58 Aligned_cols=24 Identities=29% Similarity=0.363 Sum_probs=20.0
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
|..+-..+|+|.+.||..|-.|.=
T Consensus 86 i~~~l~~ar~nar~vRd~lS~e~W 109 (311)
T PF04168_consen 86 IASSLSAARENARSVRDRLSSEMW 109 (311)
T ss_pred HHHHHHHHHHHHHHHHHhcCHHHH
Confidence 667778899999999998877743
No 31
>PF06254 DUF1019: Protein of unknown function (DUF1019); InterPro: IPR009364 This entry is represented by Bacteriophage phi-80, CII. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.; PDB: 3C4R_C.
Probab=39.44 E-value=35 Score=22.66 Aligned_cols=19 Identities=32% Similarity=0.590 Sum_probs=14.2
Q ss_pred HHHhHHHHHHHHHHHHHHH
Q 035051 31 FRRNVKHIRNWLEEESTAA 49 (75)
Q Consensus 31 fRRN~rhIR~WlEEe~~aa 49 (75)
+++|-.+|-.||..++.++
T Consensus 6 i~~N~Q~iFRwl~~ds~~~ 24 (89)
T PF06254_consen 6 INNNRQKIFRWLDNDSPAY 24 (89)
T ss_dssp HHHHHHHHHHHHH--SHHH
T ss_pred HHHHHHHHHHHHhCCCHHH
Confidence 5789999999999987744
No 32
>PF08695 Coa1: Cytochrome oxidase complex assembly protein 1; InterPro: IPR014807 Coa1 is an inner mitochondrial membrane protein that associates with Shy1 and is required for cytochrome oxidase complex IV assembly. It contains a conserved hydrophobic segment (amino acids 74-92) with the potential to form a membrane-spanning helix. The N terminus of Coa1 is rich in positively charged amino acids and could form an amphipathic alpha helix, characteristic of a mitochondrial presequence. A cleavage site for the mitochondrial processing peptidase is predicted adjacent to the presequence. Upon in vitro import into mitochondria, Coa1 is processed to a mature form, indicating that it possesses a cleavable presequence []. The eukaryotic cytochrome oxidase complex consists of 12-13 subunits, with three mitochondrial encoded subunits, Cox1-Cox3, forming the core enzyme. Translation of the Cox1 transcript requires the two promoters, Pet309 and Mss51, and the latter has an additional role in translational elongation. Coa1 is necessary for linking the activity of Mss51 to Cox1 insertion into the assembly complex [].
Probab=39.06 E-value=22 Score=22.57 Aligned_cols=31 Identities=16% Similarity=0.376 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHhHHHhHHHHHHhHHHHHH
Q 035051 10 VAGVSAVVLLLRSDVKQSASIFRRNVKHIRN 40 (75)
Q Consensus 10 vagV~Av~lLlrsDVrqS~a~fRRN~rhIR~ 40 (75)
+.++++.++..-.+-.+++..++.=+.++|+
T Consensus 7 ~~~~~~~~~~~~~~~~~~s~~y~~al~~l~~ 37 (116)
T PF08695_consen 7 VIGWGVFLFYAINSEKKSSEYYKEALEQLRS 37 (116)
T ss_pred eHHHHHHHHHHHHHHHhcCHHHHHHHHHHHh
Confidence 3444444444555556666777887877775
No 33
>PRK11876 petM cytochrome b6-f complex subunit PetM; Reviewed
Probab=38.23 E-value=34 Score=19.30 Aligned_cols=20 Identities=30% Similarity=0.446 Sum_probs=15.7
Q ss_pred chHHHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLLLR 21 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLlr 21 (75)
|..-|.+|..|++-.++|++
T Consensus 9 A~i~~~LvlvGlalGf~LLk 28 (32)
T PRK11876 9 AALFWVLIPVGLAGGALLLK 28 (32)
T ss_pred HHHHHHHHHHHHHHHHHhee
Confidence 34457889999999988875
No 34
>PF10104 Brr6_like_C_C: Di-sulfide bridge nucleocytoplasmic transport domain; InterPro: IPR018767 This entry represents the highly conserved C-terminal region of Brr6-like proteins, including Brl1, which are found in fungi. Brr6 from Saccharomyces cerevisiae (Baker's yeast) is an essential nuclear envelope integral membrane protein that is required for mRNA nuclear export []. Brr6 is involved in the nuclear pore complex (NPC) distribution and nuclear envelope morphology. Brr6 interacts with Brl1, which is also involved in mRNA and protein export from the nucleus []. The conserved C-terminal region carries four highly conserved cysteine residues. It is suggested that members of the family interact with each other via di-sulphide bridges to form a complex that is involved in nucleocytoplasmic transport.; GO: 0015031 protein transport, 0051028 mRNA transport, 0016021 integral to membrane
Probab=38.14 E-value=1.3e+02 Score=20.47 Aligned_cols=34 Identities=18% Similarity=0.270 Sum_probs=23.2
Q ss_pred hHHHHHHHHHHHH---HHHHHHHhHHHhHHHHHHhHH
Q 035051 3 LTNFILTVAGVSA---VVLLLRSDVKQSASIFRRNVK 36 (75)
Q Consensus 3 lTNFilTvagV~A---v~lLlrsDVrqS~a~fRRN~r 36 (75)
+-|++++...+-. .+..+|+||+.-....+..+.
T Consensus 8 ~~N~~~~~~~ly~~~~~~~tI~~DI~~k~~~~~~~~~ 44 (135)
T PF10104_consen 8 FFNIILVSIFLYLVYSFISTIRSDINHKIEQYKLELL 44 (135)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4577777666555 455678999987776666543
No 35
>TIGR01764 excise DNA binding domain, excisionase family. An excisionase, or Xis protein, is a small protein that binds and promotes excisive recombination; it is not enzymatically active. This model represents a number of putative excisionases and related proteins from temperate phage, plasmids, and transposons, as well as DNA binding domains of other proteins, such as a DNA modification methylase. This model identifies mostly small proteins and N-terminal regions of large proteins, but some proteins appear to have two copies. This domain appears similar, in both sequence and predicted secondary structure (PSIPRED) to the MerR family of transcriptional regulators (pfam00376).
Probab=38.00 E-value=29 Score=17.68 Aligned_cols=23 Identities=13% Similarity=0.213 Sum_probs=19.1
Q ss_pred hHHHhHHHHHHhHHHHHHHHHHH
Q 035051 23 DVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 23 DVrqS~a~fRRN~rhIR~WlEEe 45 (75)
.+++.+.+|.-.-.+|++|+.++
T Consensus 3 t~~e~a~~lgis~~ti~~~~~~g 25 (49)
T TIGR01764 3 TVEEAAEYLGVSKDTVYRLIHEG 25 (49)
T ss_pred CHHHHHHHHCCCHHHHHHHHHcC
Confidence 46788888988999999998764
No 36
>PRK00129 upp uracil phosphoribosyltransferase; Reviewed
Probab=37.82 E-value=30 Score=24.43 Aligned_cols=28 Identities=29% Similarity=0.338 Sum_probs=23.6
Q ss_pred HHHhHHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 20 LRSDVKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 20 lrsDVrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
.-+|..-+..-||++++.|-.||-+|..
T Consensus 18 ~lRd~~t~~~~fr~~~~rl~~~l~~eal 45 (209)
T PRK00129 18 LLRDKNTSTKRFRELLEELGRLLAYEAT 45 (209)
T ss_pred HHHCCCCCHHHHHHHHHHHHHHHHHHHh
Confidence 3467778888999999999999999844
No 37
>PF02153 PDH: Prephenate dehydrogenase; InterPro: IPR003099 Members of this family are prephenate dehydrogenases 1.3.1.12 from EC involved in tyrosine biosynthesis. ; GO: 0004665 prephenate dehydrogenase (NADP+) activity, 0008977 prephenate dehydrogenase activity, 0006571 tyrosine biosynthetic process, 0055114 oxidation-reduction process; PDB: 2F1K_B 2PV7_A 3DZB_B 3KTD_B 3B1F_A 2G5C_D 3GGP_C 3GGG_C 3GGO_D.
Probab=37.53 E-value=78 Score=22.75 Aligned_cols=29 Identities=17% Similarity=0.319 Sum_probs=19.7
Q ss_pred HHHHh-HHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 19 LLRSD-VKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 19 LlrsD-VrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
+.-.+ +.+.-.-|++++.++|.||+++..
T Consensus 220 ~~N~~~~~~~l~~~~~~L~~l~~~l~~~d~ 249 (258)
T PF02153_consen 220 LSNPENLLEALDEFIKELNELREALEAGDE 249 (258)
T ss_dssp HHTHHHHHHHHHHHHHHHHHHHHHHHTTSH
T ss_pred HHCHHHHHHHHHHHHHHHHHHHHHHHcCCH
Confidence 33444 667777777778888888876643
No 38
>PF00707 IF3_C: Translation initiation factor IF-3, C-terminal domain; InterPro: IPR019815 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2IFE_A 1TIG_A 2CRQ_A.
Probab=35.70 E-value=31 Score=21.53 Aligned_cols=17 Identities=18% Similarity=0.384 Sum_probs=13.8
Q ss_pred HHHHhHHHHHHHHHHHH
Q 035051 30 IFRRNVKHIRNWLEEES 46 (75)
Q Consensus 30 ~fRRN~rhIR~WlEEe~ 46 (75)
-|..-+++++.|||.+-
T Consensus 17 Dl~~K~k~~~~fL~kG~ 33 (88)
T PF00707_consen 17 DLETKLKQAKKFLEKGH 33 (88)
T ss_dssp HHHHHHHHHHHHHHTTE
T ss_pred HHHHHHHHHHHHHHCCC
Confidence 46677999999999863
No 39
>TIGR03493 cellullose_BcsF celllulose biosynthesis operon protein BcsF/YhjT. Members of this protein family are found invariably together with genes of bacterial cellulose biosynthesis, and are presumed to be involved in the process. Members average about 63 amino acids in length and are not uncharacterized. The gene has been designated both YhjT and BcsF (bacterial cellulose synthesis F).
Probab=35.64 E-value=1.1e+02 Score=19.54 Aligned_cols=32 Identities=25% Similarity=0.377 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 7 ILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 7 ilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
|+-+.++.|.+++- -+-++||-.+++|+|+.-
T Consensus 6 ilQli~lcALIf~p------Lgyl~~r~~~r~r~~~r~ 37 (62)
T TIGR03493 6 ILQLVLLCALIFFP------LGYLARRSLRRIRTTLRL 37 (62)
T ss_pred HHHHHHHHHHHHHh------HHHHHHhhhHHHHHHHHH
Confidence 56777888877764 346689999999999754
No 40
>TIGR00561 pntA NAD(P) transhydrogenase, alpha subunit. In some species, such as Rhodospirillum rubrum, the alpha chain is replaced by two shorter chains, both with some homology to the full-length alpha chain modeled here. These score below the trusted cutoff.
Probab=35.03 E-value=31 Score=28.65 Aligned_cols=20 Identities=30% Similarity=0.313 Sum_probs=17.3
Q ss_pred CchHHHHHHHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLl 20 (75)
|+.||.|.++..|||...+-
T Consensus 453 ms~tnaisgi~~vg~~~~~~ 472 (511)
T TIGR00561 453 MSVTNAISGIIIVGALLQIS 472 (511)
T ss_pred hhhhhHHHHHHHHHHHHHhc
Confidence 88999999999999976554
No 41
>PF12728 HTH_17: Helix-turn-helix domain
Probab=34.92 E-value=34 Score=18.54 Aligned_cols=23 Identities=17% Similarity=0.465 Sum_probs=19.6
Q ss_pred hHHHhHHHHHHhHHHHHHHHHHH
Q 035051 23 DVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 23 DVrqS~a~fRRN~rhIR~WlEEe 45 (75)
++++.+.+|+=...+|+.|+.++
T Consensus 3 t~~e~a~~l~is~~tv~~~~~~g 25 (51)
T PF12728_consen 3 TVKEAAELLGISRSTVYRWIRQG 25 (51)
T ss_pred CHHHHHHHHCcCHHHHHHHHHcC
Confidence 46788999999999999999765
No 42
>PF05043 Mga: Mga helix-turn-helix domain; InterPro: IPR007737 Mga is a DNA-binding protein that activates the expression of several important virulence genes in group A streptococcus in response to changing environmental conditions []. The family also contains VirR like proteins which match only at the C terminus of the alignment.; PDB: 3SQN_A.
Probab=34.84 E-value=41 Score=20.04 Aligned_cols=22 Identities=23% Similarity=0.454 Sum_probs=17.0
Q ss_pred hHHHhHHHHHHhHHHHHHHHHH
Q 035051 23 DVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 23 DVrqS~a~fRRN~rhIR~WlEE 44 (75)
+.--|-+.++|-+++|+.||++
T Consensus 39 ~~~iS~sti~~~i~~l~~~l~~ 60 (87)
T PF05043_consen 39 ELFISRSTIYRDIKKLNKYLKK 60 (87)
T ss_dssp HHT--HHHHHHHHHHHHHHHHC
T ss_pred HHCCCHHHHHHHHHHHHHHHHH
Confidence 4445788999999999999985
No 43
>PF09361 Phasin_2: Phasin protein; InterPro: IPR018968 Phasins (or granule-associate proteins) are surface proteins found covering Polyhydroxyalkanoate (PHA) storage granules in bacteria. Polyhydroxyalkanoates are linear polyesters produced by bacterial fermentation of sugar or lipids for the purpose of storing carbon and energy, and are accumulated as intracellular granules by many bacteria under unfavorable conditions, enhancing their fitness and stress resistance []. The layer of phasins stabilises the granules and prevents coalescence of separated granules in the cytoplasm and nonspecific binding of other proteins to the hydrophobic surfaces of the granules. For example, in Ralstonia eutropha (strain ATCC 17699/H16/DSM 428/Stanier 337) (Cupriavidus necator (strain ATCC 17699 / H16 / DSM 428 / Stanier 337)), the major surface protein of polyhydroxybutyrate (PHB) granules is phasin PhaP1(Reu), which occurs along with three homologues (PhaP2, PhaP3, and PhaP4) that have the capacity to bind to PHB granules but are present at minor levels [, ]. These four phasins lack a highly conserved domain but share homologous hydrophobic regions. This entry describes a group of phasins that associate with polyhydroxyalkanoate (PHA) inclusions, the most common of which consist of polyhydroxybutyrate (PHB).
Probab=34.39 E-value=97 Score=17.99 Aligned_cols=47 Identities=21% Similarity=0.256 Sum_probs=31.0
Q ss_pred HHHHHHHHHhHHHhHHHHHHhHHHHHHHHHHHHHHHHHHhhhcCccc
Q 035051 14 SAVVLLLRSDVKQSASIFRRNVKHIRNWLEEESTAASKAAENIKPKE 60 (75)
Q Consensus 14 ~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEEe~~aaska~~~~~pKe 60 (75)
.++.-+-..=.+..-.+.++|+.-++.++++......+-..-..|.+
T Consensus 13 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~a~~~~e 59 (102)
T PF09361_consen 13 EAFQALAEAALEGAEALAALNLEAARQNVEEAFAQAQQLASAKDPQE 59 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCHHH
Confidence 33444444445677889999999999999997665555444334444
No 44
>TIGR01710 typeII_sec_gspG general secretion pathway protein G. This model represents GspG, protein G of the main terminal branch of the general secretion pathway, also called type II secretion. It transports folded proteins across the bacterial outer membrane and is widely distributed in Gram-negative pathogens.
Probab=34.29 E-value=1.4e+02 Score=19.71 Aligned_cols=20 Identities=25% Similarity=0.421 Sum_probs=13.0
Q ss_pred HHhHHHHHHhHHHHHHHHHH
Q 035051 25 KQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 25 rqS~a~fRRN~rhIR~WlEE 44 (75)
+......+.+++.|++=|+.
T Consensus 32 ~a~~~~~~~~l~~i~~al~~ 51 (134)
T TIGR01710 32 KAKAQVAKAQIKALKNALDM 51 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33345567888888777664
No 45
>smart00848 Inhibitor_I29 Cathepsin propeptide inhibitor domain (I29). This domain is found at the N-terminus of some C1 peptidases such as Cathepsin L where it acts as a propeptide. There are also a number of proteins that are composed solely of multiple copies of this domain such as the peptidase inhibitor salarin. This family is classified as I29 by MEROPS. Peptide proteinase inhibitors can be found as single domain proteins or as single or multiple domains within proteins; these are referred to as either simple or compound inhibitors, respectively. In many cases they are synthesised as part of a larger precursor protein, either as a prepropeptide or as an N-terminal domain associated with an inactive peptidase or zymogen. This domain prevents access of the substrate to the active site. Removal of the N-terminal inhibitor domain either by interaction with a second peptidase or by autocatalytic cleavage activates the zymogen. Other inhibitors interact direct with proteinases using a s
Probab=34.10 E-value=42 Score=18.19 Aligned_cols=14 Identities=36% Similarity=0.584 Sum_probs=11.8
Q ss_pred HHHHHhHHHHHHHH
Q 035051 29 SIFRRNVKHIRNWL 42 (75)
Q Consensus 29 a~fRRN~rhIR~Wl 42 (75)
.+|+.|++.|..+=
T Consensus 23 ~~f~~n~~~i~~~N 36 (57)
T smart00848 23 EIFKENLKFIEEHN 36 (57)
T ss_pred HHHHHHHHHHHHHH
Confidence 68999999998753
No 46
>PLN02541 uracil phosphoribosyltransferase
Probab=33.75 E-value=39 Score=25.37 Aligned_cols=27 Identities=19% Similarity=0.292 Sum_probs=23.5
Q ss_pred HHhHHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 21 RSDVKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 21 rsDVrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
-+|..-+...||.+++.|-.||-+|..
T Consensus 49 LRd~~T~~~~Fr~~~~rl~~lL~~Ea~ 75 (244)
T PLN02541 49 LRNEQTPPPIFRSAMAELGRLLIYEAS 75 (244)
T ss_pred HHCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 468888999999999999999999843
No 47
>TIGR02848 spore_III_AC stage III sporulation protein AC. Members of this protein family are designated SpoIIIAC, part of the spoIIIA operon of sporulation genes whose mutant phenotype is linked to sporulation stage III. Members of this family are encoded by the genome of a species if and only if that species is capable of endospore formation, as in Bacillus subtilis. The molecular function of this small, probable integral membrane protein is unknown.
Probab=33.59 E-value=46 Score=21.29 Aligned_cols=25 Identities=32% Similarity=0.554 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHhHH
Q 035051 5 NFILTVAGVSAVVLLLRSDVKQSAS 29 (75)
Q Consensus 5 NFilTvagV~Av~lLlrsDVrqS~a 29 (75)
|.|.-+||||-++..+.+=.+||++
T Consensus 4 ~lIFkIAgVGIlvavl~~vLk~sGk 28 (64)
T TIGR02848 4 SLIFKIAGVGILVAVIHTILKQSGK 28 (64)
T ss_pred hhhhhHhhHHHHHHHHHHHHHHcCc
Confidence 6788899999999999998888874
No 48
>TIGR01185 devC DevC protein. This model describes a predicted membrane subunit, DevC, of an ABC transporter known so far from two species of cyanobacteria. Some experimental data from mutational analysis suggest that this protein along with DevA and DevB encoded in the same operon may be involved in the transport/export of glycolipids.
Probab=32.40 E-value=90 Score=23.86 Aligned_cols=38 Identities=13% Similarity=0.263 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHH
Q 035051 5 NFILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWL 42 (75)
Q Consensus 5 NFilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~Wl 42 (75)
=|++.++|++-+++|+--=.==.....++|...|++|=
T Consensus 14 R~~l~~~~i~f~~~Lv~~~~Gl~~Gl~~~~~~~i~~~~ 51 (380)
T TIGR01185 14 RLAVALAGIAFADILMFMQIGFRDALYYSNVRLHTSLQ 51 (380)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhcCC
Confidence 47788888877777665433333456788999998873
No 49
>PF10518 TAT_signal: TAT (twin-arginine translocation) pathway signal sequence; InterPro: IPR019546 The twin-arginine translocation (Tat) pathway serves the role of transporting folded proteins across energy-transducing membranes []. Homologues of the genes that encode the transport apparatus occur in archaea, bacteria, chloroplasts, and plant mitochondria []. In bacteria, the Tat pathway catalyses the export of proteins from the cytoplasm across the inner/cytoplasmic membrane. In chloroplasts, the Tat components are found in the thylakoid membrane and direct the import of proteins from the stroma. The Tat pathway acts separately from the general secretory (Sec) pathway, which transports proteins in an unfolded state []. It is generally accepted that the primary role of the Tat system is to translocate fully folded proteins across membranes. An example of proteins that need to be exported in their 3D conformation are redox proteins that have acquired complex multi-atom cofactors in the bacterial cytoplasm (or the chloroplast stroma or mitochondrial matrix). They include hydrogenases, formate dehydrogenases, nitrate reductases, trimethylamine N-oxide (TMAO) reductases and dimethyl sulphoxide (DMSO) reductases [, ]. The Tat system can also export whole heteroligomeric complexes in which some proteins have no Tat signal. This is the case of the DMSO reductase or formate dehydrogenase complexes. But there are also other cases where the physiological rationale for targeting a protein to the Tat signal is less obvious. Indeed, there are examples of homologous proteins that are in some cases targeted to the Tat pathway and in other cases to the Sec apparatus. Some examples are: copper nitrite reductases, flavin domains of flavocytochrome c and N-acetylmuramoyl-L-alanine amidases []. In halophilic archaea such as Halobacterium almost all secreted proteins appear to be Tat targeted. It has been proposed to be a response to the difficulties these organisms would otherwise face in successfully folding proteins extracellularly at high ionic strength []. The Tat signal peptide consists of three motifs: the positively charged N-terminal motif, the hydrophobic region and the C-terminal region that generally ends with a consensus short motif (A-x-A) specifying cleavage by signal peptidase. Sequence analysis revealed that signal peptides capable of targeting the Tat protein contain the consensus sequence [ST]-R-R-x-F-L-K. The nearly invariant twin-arginine gave rise to the pathway's name. In addition the h-region of Tat signal peptides is typically less hydrophobic than that of Sec-specific signal peptides [, ].
Probab=32.28 E-value=65 Score=16.62 Aligned_cols=15 Identities=27% Similarity=0.302 Sum_probs=11.2
Q ss_pred HHHHHHHHHHHHHHH
Q 035051 5 NFILTVAGVSAVVLL 19 (75)
Q Consensus 5 NFilTvagV~Av~lL 19 (75)
||+-+.++++|+.++
T Consensus 6 ~fLk~~~a~~a~~~~ 20 (26)
T PF10518_consen 6 QFLKGGAAAAAAAAL 20 (26)
T ss_pred HHHHHHHHHHHHHHh
Confidence 688888888777654
No 50
>PF03452 Anp1: Anp1; InterPro: IPR005109 The members of this family (Anp1, Van1 and Mnn9) are membrane proteins required for proper Golgi function. These proteins colocalize within the cis Golgi, where they are physically associated in two distinct complexes [].
Probab=32.25 E-value=1.7 Score=33.48 Aligned_cols=21 Identities=33% Similarity=0.732 Sum_probs=19.1
Q ss_pred HHHHHHHHHHHHhHHHhHHHH
Q 035051 11 AGVSAVVLLLRSDVKQSASIF 31 (75)
Q Consensus 11 agV~Av~lLlrsDVrqS~a~f 31 (75)
=|||.+++|.++||-+.++||
T Consensus 245 DgVGG~~llvKA~VhR~G~~F 265 (269)
T PF03452_consen 245 DGVGGTALLVKADVHRDGAMF 265 (269)
T ss_pred cccCceeEEEeeeeecCcccC
Confidence 389999999999999999887
No 51
>PF06729 CENP-R: Kinetochore component, CENP-R; InterPro: IPR009601 This family consists of mammalian nuclear receptor co-activator NRIF3 proteins. NRIF3 exhibits a distinct receptor specificity in interacting with and potentiating the activity of only TRs and RXRs but not other examined nuclear receptors. NRIF3 as a coregulator that possesses both transactivation and transrepression domains and/or functions. Collectively, the NRIF3 family of coregulators may play dual roles in mediating both positive and negative regulatory effects on gene expression [].
Probab=30.90 E-value=89 Score=22.73 Aligned_cols=26 Identities=23% Similarity=0.359 Sum_probs=21.2
Q ss_pred HHHHHHHhHHHhHHHH---HHhHHHHHHH
Q 035051 16 VVLLLRSDVKQSASIF---RRNVKHIRNW 41 (75)
Q Consensus 16 v~lLlrsDVrqS~a~f---RRN~rhIR~W 41 (75)
.++.|.+.|.+|+.-| |.|++.|..-
T Consensus 60 ~fm~L~SkvekS~eeime~~qnL~slQAL 88 (139)
T PF06729_consen 60 EFMVLLSKVEKSLEEIMEIRQNLSSLQAL 88 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 4678999999999865 8899888653
No 52
>PRK09424 pntA NAD(P) transhydrogenase subunit alpha; Provisional
Probab=30.76 E-value=40 Score=27.83 Aligned_cols=20 Identities=30% Similarity=0.295 Sum_probs=17.1
Q ss_pred CchHHHHHHHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLl 20 (75)
|..||.|.++..|||...+=
T Consensus 453 ms~tnaisgi~~~g~~~~~~ 472 (509)
T PRK09424 453 MSVTNAISGIIVVGALLQIG 472 (509)
T ss_pred hhhhhHHHHHHHHHHHHHhc
Confidence 88999999999999976553
No 53
>PF09849 DUF2076: Uncharacterized protein conserved in bacteria (DUF2076); InterPro: IPR018648 This family of hypothetical prokaryotic proteins has no known function but includes putative perimplasmic ligand-binding sensor proteins.
Probab=30.49 E-value=58 Score=24.77 Aligned_cols=28 Identities=32% Similarity=0.363 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHh
Q 035051 3 LTNFILTVAGVSAVVLLLRSDVKQSASIFRRN 34 (75)
Q Consensus 3 lTNFilTvagV~Av~lLlrsDVrqS~a~fRRN 34 (75)
|.+-.=|+|||+..+||+-. -..||.++
T Consensus 138 Lg~A~~TAAGVAGG~lL~n~----i~~lF~~~ 165 (247)
T PF09849_consen 138 LGGAAQTAAGVAGGMLLANG----IESLFGGH 165 (247)
T ss_pred HHHHHHHHHHHHHHHHHHHH----HHHHhcCC
Confidence 45667799999999998742 23455544
No 54
>KOG4762 consensus DNA replication factor [Replication, recombination and repair]
Probab=30.42 E-value=36 Score=28.88 Aligned_cols=15 Identities=47% Similarity=0.678 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHHH
Q 035051 34 NVKHIRNWLEEESTA 48 (75)
Q Consensus 34 N~rhIR~WlEEe~~a 48 (75)
|..|||.|||+|..+
T Consensus 478 ~~~~i~~rl~~e~~~ 492 (498)
T KOG4762|consen 478 DGEHIRARLEEETSQ 492 (498)
T ss_pred cHHHHHHHHHHHhhh
Confidence 789999999998653
No 55
>PF07332 DUF1469: Protein of unknown function (DUF1469); InterPro: IPR009937 This entry represents proteins found in hypothetical bacterial proteins where is is annotated as ycf49 or ycf49-like. The function is not known.
Probab=30.13 E-value=1.3e+02 Score=18.90 Aligned_cols=25 Identities=20% Similarity=0.189 Sum_probs=15.1
Q ss_pred HHHhHHHhHHHH---HHhHHHHHHHHHH
Q 035051 20 LRSDVKQSASIF---RRNVKHIRNWLEE 44 (75)
Q Consensus 20 lrsDVrqS~a~f---RRN~rhIR~WlEE 44 (75)
.++.+++....| ++.+|+=+.||.|
T Consensus 93 ~~~~l~~~~~~~~~t~~~l~~d~~~lk~ 120 (121)
T PF07332_consen 93 GRRRLRRAPPPFEETIAELKEDIAALKE 120 (121)
T ss_pred HHHHHhcCCCCHHHHHHHHHHHHHHhhc
Confidence 455555444444 6667777778776
No 56
>PF11076 YbhQ: Putative inner membrane protein YbhQ; InterPro: IPR021303 This family is conserved in Proteobacteria. The function is not known but most members are annotated as being inner membrane protein YbhQ.
Probab=29.93 E-value=42 Score=24.33 Aligned_cols=25 Identities=44% Similarity=0.616 Sum_probs=20.0
Q ss_pred HHHHHHHHHHH-----HHHHHHHHhHHHhH
Q 035051 4 TNFILTVAGVS-----AVVLLLRSDVKQSA 28 (75)
Q Consensus 4 TNFilTvagV~-----Av~lLlrsDVrqS~ 28 (75)
-||+|..+||. |+++|+.+|=++.-
T Consensus 98 NNlLLa~aG~~iLaGPavvSLLaKe~~~~~ 127 (135)
T PF11076_consen 98 NNLLLALAGVVILAGPAVVSLLAKEKKRRH 127 (135)
T ss_pred hhHHHHHHhHHHHhhHHHHHHHHccccccc
Confidence 48999999986 78999998876543
No 57
>TIGR01817 nifA Nif-specific regulatory protein. This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.
Probab=29.85 E-value=2.2e+02 Score=22.48 Aligned_cols=40 Identities=18% Similarity=0.184 Sum_probs=32.4
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 5 NFILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 5 NFilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
+|+-++|...|+++....-+...-.-+.+-.++...||+.
T Consensus 143 ~lL~~lA~~ia~aI~~~~~~~~~~~~l~~~~~~l~~~~~~ 182 (534)
T TIGR01817 143 RFLEMVANLIGQTVRLHRLVAQRRERLIAEAVQLSKQLRD 182 (534)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 6888999999999988777776666677677778888876
No 58
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=28.83 E-value=90 Score=18.93 Aligned_cols=22 Identities=18% Similarity=0.415 Sum_probs=17.6
Q ss_pred HHHhHHHhHHHHHHhHHHHHHH
Q 035051 20 LRSDVKQSASIFRRNVKHIRNW 41 (75)
Q Consensus 20 lrsDVrqS~a~fRRN~rhIR~W 41 (75)
-..+..+.|..|+++.+++++-
T Consensus 39 kt~~L~~~a~~F~k~a~~l~r~ 60 (89)
T PF00957_consen 39 KTEELSDNAKQFKKNAKKLKRK 60 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHhHHHHHHHHHHHHH
Confidence 3567788999999999988763
No 59
>smart00150 SPEC Spectrin repeats.
Probab=28.70 E-value=56 Score=18.29 Aligned_cols=16 Identities=31% Similarity=0.812 Sum_probs=13.9
Q ss_pred HHHhHHHHHHHHHHHH
Q 035051 31 FRRNVKHIRNWLEEES 46 (75)
Q Consensus 31 fRRN~rhIR~WlEEe~ 46 (75)
|.+++..+..||++-.
T Consensus 3 f~~~~~~l~~Wl~~~e 18 (101)
T smart00150 3 FLRDADELEAWLSEKE 18 (101)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 7889999999999854
No 60
>MTH00021 ND6 NADH dehydrogenase subunit 6; Validated
Probab=28.26 E-value=52 Score=23.45 Aligned_cols=19 Identities=42% Similarity=0.558 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035051 4 TNFILTVAGVSAVVLLLRS 22 (75)
Q Consensus 4 TNFilTvagV~Av~lLlrs 22 (75)
+-+||++|-+||+++-.|+
T Consensus 148 ~s~lLLvAmIGAIvLa~~~ 166 (188)
T MTH00021 148 ASFILLVAMIGAIVLTQEP 166 (188)
T ss_pred HHHHHHHHHHHHHHHHhcc
Confidence 4579999999999998875
No 61
>PF09607 BrkDBD: Brinker DNA-binding domain; InterPro: IPR018586 This DNA-binding domain is the first approx. 100 residues of the N-terminal end of Brinker. The structure of this domain in complex with DNA consists of four alpha-helices that contain a helix-turn-helix DNA recognition motif specific for GC-rich DNA. The Brinker nuclear repressor is a major element of the Drosophila Decapentaplegic morphogen signalling pathway []. ; PDB: 2GLO_A.
Probab=28.17 E-value=48 Score=20.69 Aligned_cols=23 Identities=22% Similarity=0.566 Sum_probs=17.0
Q ss_pred HHhHHHHHHhHHHHHHHHHHHHH
Q 035051 25 KQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 25 rqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
|-.+.-|==|=++||.|+..+..
T Consensus 29 RAaarkf~V~r~~Vr~W~kqe~~ 51 (58)
T PF09607_consen 29 RAAARKFNVSRRQVRKWRKQEEE 51 (58)
T ss_dssp HHHHHHTTS-HHHHHHHHTTHHH
T ss_pred HHHHHHhCccHHHHHHHHHHHHH
Confidence 45677777788999999987744
No 62
>PF04235 DUF418: Protein of unknown function (DUF418); InterPro: IPR007349 Tihs is a probable integral membrane protein. It is usually found associated with (IPR007299 from INTERPRO).
Probab=27.80 E-value=61 Score=21.34 Aligned_cols=12 Identities=58% Similarity=0.661 Sum_probs=8.9
Q ss_pred CchHHHHHHHHH
Q 035051 1 MALTNFILTVAG 12 (75)
Q Consensus 1 MAlTNFilTvag 12 (75)
|||||.|+-...
T Consensus 93 maLT~Yi~qsii 104 (163)
T PF04235_consen 93 MALTNYILQSII 104 (163)
T ss_pred HHHHHHHHHHHH
Confidence 789998876543
No 63
>PF13623 SurA_N_2: SurA N-terminal domain
Probab=27.76 E-value=35 Score=23.57 Aligned_cols=25 Identities=16% Similarity=0.570 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHHhHHHhHHHH
Q 035051 6 FILTVAGVSAVVLLLRSDVKQSASIF 31 (75)
Q Consensus 6 FilTvagV~Av~lLlrsDVrqS~a~f 31 (75)
|++.|.|++-++.++ +|++.++..+
T Consensus 10 lLi~vIglAL~aFIv-~d~~~~~~~~ 34 (145)
T PF13623_consen 10 LLIIVIGLALFAFIV-GDFRSGSGFF 34 (145)
T ss_pred HHHHHHHHHHHHHHH-HHHhccCCCc
Confidence 678888999888888 9997666555
No 64
>PF07175 Osteoregulin: Osteoregulin; InterPro: IPR009837 This family represents a conserved region approximately 180 residues long within osteoregulin, a bone-remodelling protein expressed highly in osteocytes within trabecular and cortical bone. A conserved RGD motif is found towards the C-terminal end of this region, and this is potentially involved in integrin recognition [].
Probab=26.94 E-value=17 Score=26.90 Aligned_cols=35 Identities=37% Similarity=0.654 Sum_probs=23.1
Q ss_pred HHhHHHHHHhHHHHH------HHHHHHHHHHHHHhhhcCcccccccCC
Q 035051 25 KQSASIFRRNVKHIR------NWLEEESTAASKAAENIKPKELETKIP 66 (75)
Q Consensus 25 rqS~a~fRRN~rhIR------~WlEEe~~aaska~~~~~pKel~~~~p 66 (75)
..+++.+|.|+.||+ .||.||. ++.+|...-+++|
T Consensus 48 eygaaLirnnmqh~~~pvtv~ell~een-------ke~kprnVlskIp 88 (163)
T PF07175_consen 48 EYGAALIRNNMQHIMGPVTVTELLGEEN-------KEKKPRNVLSKIP 88 (163)
T ss_pred HHHHHHhcccCccccCceehhhhccccc-------cccCcccccccCc
Confidence 678999999999986 4666542 2235555555554
No 65
>PF10118 Metal_hydrol: Predicted metal-dependent hydrolase; InterPro: IPR016516 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function
Probab=26.50 E-value=79 Score=23.36 Aligned_cols=23 Identities=26% Similarity=0.374 Sum_probs=17.8
Q ss_pred CchHHHHHHHHHHHHHHHHHHHh
Q 035051 1 MALTNFILTVAGVSAVVLLLRSD 23 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLlrsD 23 (75)
|.++-+.++.........||+.|
T Consensus 184 ~~~~~~~~~~~~~~~~~~ll~~D 206 (253)
T PF10118_consen 184 MVLATVLFLGLWIRGTAYLLRQD 206 (253)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhc
Confidence 45666777777777888899999
No 66
>PRK08476 F0F1 ATP synthase subunit B'; Validated
Probab=26.38 E-value=99 Score=20.76 Aligned_cols=19 Identities=11% Similarity=0.107 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHHHHHHHH
Q 035051 3 LTNFILTVAGVSAVVLLLR 21 (75)
Q Consensus 3 lTNFilTvagV~Av~lLlr 21 (75)
|+||+.++.-...++++|+
T Consensus 7 ~~~~~~qli~Flil~~~l~ 25 (141)
T PRK08476 7 PYLMLATFVVFLLLIVILN 25 (141)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 5677777777666666654
No 67
>PRK15058 cytochrome b562; Provisional
Probab=26.09 E-value=2.4e+02 Score=19.84 Aligned_cols=59 Identities=25% Similarity=0.362 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHH---------HHHHHHHHHHHHhhhcCcccccccCC
Q 035051 7 ILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRN---------WLEEESTAASKAAENIKPKELETKIP 66 (75)
Q Consensus 7 ilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~---------WlEEe~~aaska~~~~~pKel~~~~p 66 (75)
||.++.+++...-|..||+.--..+..|.+++-. =|..=..++.++ ++..|-+|+.+.|
T Consensus 8 ll~~~~l~~s~~a~Aa~l~~~M~~m~~~~k~~~~A~~a~~~k~al~~mr~aa~~A-k~~~P~kl~~k~~ 75 (128)
T PRK15058 8 ILAVSSLVFSSASFAADLEDNMETLNDNLKVVEKTDNAAEVKDALTKMRAAALDA-QKATPPKLEDKAP 75 (128)
T ss_pred HHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHH-hccCCchhhccCC
Confidence 3344444444444455666555555555555421 111111122233 3347777877766
No 68
>PF14110 DUF4282: Domain of unknown function (DUF4282)
Probab=26.05 E-value=1.8e+02 Score=18.32 Aligned_cols=36 Identities=28% Similarity=0.421 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhHHHhHHHHH--HhHHHHH
Q 035051 4 TNFILTVAGVSAVVLLLRSDVKQSASIFR--RNVKHIR 39 (75)
Q Consensus 4 TNFilTvagV~Av~lLlrsDVrqS~a~fR--RN~rhIR 39 (75)
.++++...+..+.+++.|==.----++|| +|+++||
T Consensus 50 ~~~l~~~~~~l~~~i~~Ri~~E~~i~~fri~e~l~~i~ 87 (90)
T PF14110_consen 50 LGLLLGPLGFLLGIILWRIMLEFLIAIFRIAENLRRIR 87 (90)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455444444444444433333334443 5666665
No 69
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=25.54 E-value=1.7e+02 Score=20.74 Aligned_cols=24 Identities=8% Similarity=0.158 Sum_probs=16.3
Q ss_pred HHHhHHHHHHhHHHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe~~ 47 (75)
|+....-++++-++|+.-+.+...
T Consensus 44 Vt~Lne~Y~~~k~~L~~all~k~e 67 (155)
T PF08496_consen 44 VTDLNERYEDMKEQLKQALLDKKE 67 (155)
T ss_pred EeeHHHHHHHHHHHHHHHhcCHHH
Confidence 444456788888888887766533
No 70
>PHA00649 hypothetical protein
Probab=25.33 E-value=54 Score=22.03 Aligned_cols=20 Identities=20% Similarity=0.326 Sum_probs=15.4
Q ss_pred HHHhHHHHHHhHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLE 43 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlE 43 (75)
+---..-||..++|.|.|-.
T Consensus 32 ~P~~VEEFr~D~~~~Rr~RK 51 (83)
T PHA00649 32 VPEQVEEFREDLRFGRRMRK 51 (83)
T ss_pred CHHHHHHHHHHHHHHHHHHH
Confidence 33445789999999999953
No 71
>PRK01371 sec-independent translocase; Provisional
Probab=25.17 E-value=1.3e+02 Score=21.34 Aligned_cols=34 Identities=18% Similarity=0.215 Sum_probs=22.7
Q ss_pred HHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 11 AGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 11 agV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
.+|.|++++=-..+-+-++-+.+=+|++|+|..+
T Consensus 12 IlvVallvfGPeKLP~~ar~lg~~ir~~R~~~~~ 45 (137)
T PRK01371 12 LVVLAVLVFGPDKLPKAARDAGRTLRQLREMANN 45 (137)
T ss_pred HHHHHhheeCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444455554577777777777778888877655
No 72
>COG0290 InfC Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]
Probab=25.12 E-value=38 Score=25.28 Aligned_cols=12 Identities=33% Similarity=0.625 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHH
Q 035051 35 VKHIRNWLEEES 46 (75)
Q Consensus 35 ~rhIR~WlEEe~ 46 (75)
+||+|.|||++.
T Consensus 108 ~k~~~rFLe~Gd 119 (176)
T COG0290 108 LKNARRFLEKGD 119 (176)
T ss_pred HHHHHHHHHCCC
Confidence 789999999864
No 73
>PRK03625 tatE twin arginine translocase protein E; Validated
Probab=25.07 E-value=1.8e+02 Score=18.28 Aligned_cols=34 Identities=9% Similarity=0.201 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHHH
Q 035051 12 GVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 12 gV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEEe 45 (75)
.+.|++++=.+.+++-+.-+.+=+|..|.=++++
T Consensus 13 lvI~lllFGpkKLp~lg~~lGk~i~~Fk~~~~~~ 46 (67)
T PRK03625 13 AALVVLLFGTKKLRTLGGDLGAAIKGFKKAMNDD 46 (67)
T ss_pred HHHHHHHcCccHHHHHHHHHHHHHHHHHHHhccc
Confidence 3444444445666666666666665555544443
No 74
>PF01843 DIL: DIL domain; InterPro: IPR018444 Dilute encodes a novel type of myosin heavy chain, with a tail, or C-terminal, region that has elements of both type II (alpha-helical coiled-coil) and type I (non-coiled-coil) myosin heavy chains. The DIL non alpha-helical domain is found in dilute myosin heavy chain proteins and other myosins. In mouse the dilute protein may play a role in the elaboration, maintenance, or function of cellular processes of melanocytes and neurons []. The MYO2 protein of Saccharomyces cerevisiae is implicated in vectorial vesicle transport and is homologous to the dilute protein over practically its entire length [].; PDB: 3MMI_B 2F6H_X.
Probab=25.00 E-value=36 Score=21.27 Aligned_cols=28 Identities=25% Similarity=0.474 Sum_probs=21.4
Q ss_pred HHHHHhH--HHhHHHHHHhHHHHHHHHHHH
Q 035051 18 LLLRSDV--KQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 18 lLlrsDV--rqS~a~fRRN~rhIR~WlEEe 45 (75)
+|.|+|- +..|--+|.|+..|..|.++.
T Consensus 18 ll~~~~~~~~~~g~qi~~nls~l~~W~~~~ 47 (105)
T PF01843_consen 18 LLLRRKYCSWSKGVQIRYNLSELEDWARSH 47 (105)
T ss_dssp HHCHSS-B-HHHHHHHHHHHHHHHHCCCCT
T ss_pred HHCCCCccccccHHHHHHHHHHHHHHHHhc
Confidence 3445554 667888999999999998764
No 75
>KOG1542 consensus Cysteine proteinase Cathepsin F [Posttranslational modification, protein turnover, chaperones]
Probab=24.72 E-value=59 Score=26.84 Aligned_cols=17 Identities=35% Similarity=0.542 Sum_probs=13.7
Q ss_pred HHHHHHhHHHHHHHHHHH
Q 035051 28 ASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 28 ~a~fRRN~rhIR~WlEEe 45 (75)
-++|++|++.++ |+.+.
T Consensus 92 l~iF~~N~~~a~-~~q~~ 108 (372)
T KOG1542|consen 92 LSIFKHNLLRAE-RLQEN 108 (372)
T ss_pred HHHHHHHHHHHH-Hhhhc
Confidence 368999999999 66654
No 76
>PRK03100 sec-independent translocase; Provisional
Probab=24.71 E-value=1.8e+02 Score=20.51 Aligned_cols=24 Identities=17% Similarity=0.028 Sum_probs=11.4
Q ss_pred HhHHHhHHHHHHhHHHHHHHHHHH
Q 035051 22 SDVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 22 sDVrqS~a~fRRN~rhIR~WlEEe 45 (75)
+++.+.-.-||+-+..++.=++||
T Consensus 31 r~lG~~vr~~R~~~~~~~~~~~~e 54 (136)
T PRK03100 31 RWTARALRQARDYASGATSQLREE 54 (136)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444444555444444444443
No 77
>TIGR02205 septum_zipA cell division protein ZipA. This model represents the full length of bacterial cell division protein ZipA. The N-terminal hydrophobic stretch is an uncleaved signal-anchor sequence. This is followed by an unconserved, variable length, low complexity region, and then a conserved C-terminal region of about 140 amino acids (see pfam04354) that interacts with the tubulin-like cell division protein FtsZ.
Probab=24.69 E-value=49 Score=25.65 Aligned_cols=16 Identities=38% Similarity=0.665 Sum_probs=13.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 035051 5 NFILTVAGVSAVVLLL 20 (75)
Q Consensus 5 NFilTvagV~Av~lLl 20 (75)
|+||.|+|+.|++-||
T Consensus 3 r~iLIIvGaiaI~aLl 18 (284)
T TIGR02205 3 RIILIIVGILAIAALL 18 (284)
T ss_pred eehHHHHHHHHHHHHH
Confidence 6899999999988666
No 78
>PF13430 DUF4112: Domain of unknown function (DUF4112)
Probab=24.57 E-value=46 Score=22.07 Aligned_cols=12 Identities=33% Similarity=0.471 Sum_probs=10.2
Q ss_pred HHhHHHHHHHHH
Q 035051 32 RRNVKHIRNWLE 43 (75)
Q Consensus 32 RRN~rhIR~WlE 43 (75)
+||++-+++|||
T Consensus 95 ~rN~~Ll~~~le 106 (106)
T PF13430_consen 95 TRNAALLEKHLE 106 (106)
T ss_pred HHHHHHHHHHhC
Confidence 688888888886
No 79
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=24.40 E-value=1.2e+02 Score=21.83 Aligned_cols=27 Identities=37% Similarity=0.434 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHhHHHhHHHHHHhHH
Q 035051 8 LTVAGVSAVVLLLRSDVKQSASIFRRNVK 36 (75)
Q Consensus 8 lTvagV~Av~lLlrsDVrqS~a~fRRN~r 36 (75)
|+.++.||.+||=|. -|+ ++--|||+-
T Consensus 96 L~LaamGA~~LLrR~-cRr-~arrR~~~s 122 (126)
T PF03229_consen 96 LTLAAMGAGALLRRC-CRR-AARRRQRVS 122 (126)
T ss_pred HHHHHHHHHHHHHHH-HHH-HHHhhccch
Confidence 556666776665444 444 555677764
No 80
>TIGR03235 DNA_S_dndA cysteine desulfurase DndA. This model describes DndA, a protein related to IscS and part of a larger family of cysteine desulfurases. It is encoded, typically, divergently from a conserved, sparsely distributed operon for sulfur modification of DNA. This modification system is designated dnd, after the phenotype of DNA degradation during electrophoresis. The system is sporadically distributed in bacteria, much like some restriction enzyme operons. DndB is described as a putative ATPase.
Probab=24.19 E-value=2.5e+02 Score=20.13 Aligned_cols=36 Identities=14% Similarity=0.250 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 9 TVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 9 TvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
.++|+.+++-++..++..-.+..+++..+++..|.+
T Consensus 244 ~~~al~~al~~~~~~~~~~~~~~~~l~~~l~~~l~~ 279 (353)
T TIGR03235 244 LIVGMGEAAEIARRNAQAWEVKLRAMRNQLRDALQT 279 (353)
T ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhcc
Confidence 345566665566666666667777778888877754
No 81
>PRK13701 psiB plasmid SOS inhibition protein B; Provisional
Probab=24.16 E-value=62 Score=23.64 Aligned_cols=17 Identities=29% Similarity=0.472 Sum_probs=15.3
Q ss_pred HhHHHhHHHHHHhHHHH
Q 035051 22 SDVKQSASIFRRNVKHI 38 (75)
Q Consensus 22 sDVrqS~a~fRRN~rhI 38 (75)
.|+|+.++-+||++-|-
T Consensus 19 Ed~R~~G~d~RR~Lt~a 35 (144)
T PRK13701 19 EDIRAAGSDERRELTHA 35 (144)
T ss_pred HHHHHHhHHHHHHhHHH
Confidence 58999999999999874
No 82
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=24.01 E-value=2.5e+02 Score=20.80 Aligned_cols=22 Identities=14% Similarity=0.144 Sum_probs=17.3
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
-.+-+...+...+-.|+||.|-
T Consensus 455 ~T~~G~~~~~~~~gfr~~L~d~ 476 (511)
T PF09972_consen 455 RTPEGAELYAQWKGFRRYLADF 476 (511)
T ss_pred cchhHHHHHHHHHHHHHHHhhh
Confidence 4466778888999999999653
No 83
>PF04418 DUF543: Domain of unknown function (DUF543); InterPro: IPR007512 This family of short eukaryotic proteins has no known function. Most of the members of this family are only 80 amino acid residues long. However the Arabidopsis homologue is over 300 residues long. These proteins contain a conserved N-terminal cysteine and a conserved motif GXGXGXG in the carboxy terminal half that may be functionally important.
Probab=23.84 E-value=1.3e+02 Score=19.25 Aligned_cols=21 Identities=29% Similarity=0.455 Sum_probs=11.0
Q ss_pred chHHHHH-HHHH----HHHHHHHHHH
Q 035051 2 ALTNFIL-TVAG----VSAVVLLLRS 22 (75)
Q Consensus 2 AlTNFil-Tvag----V~Av~lLlrs 22 (75)
.++|+|+ |+.| +.+.++|+|+
T Consensus 25 cl~~~l~k~~~G~~~G~~~s~l~frr 50 (75)
T PF04418_consen 25 CLSDTLVKTGLGFGIGVVFSLLFFRR 50 (75)
T ss_pred HHHHHHHHHhhhhhHHHHHHHHHHcc
Confidence 3678887 4333 3333445554
No 84
>PF12769 DUF3814: Domain of unknown function (DUF3814); InterPro: IPR024605 This entry represents the C-terminal domain of NAD(P) transhydrogenase, alpha subunit.
Probab=23.72 E-value=76 Score=21.15 Aligned_cols=20 Identities=30% Similarity=0.233 Sum_probs=15.9
Q ss_pred CchHHHHHHHHHHHHHHHHH
Q 035051 1 MALTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 1 MAlTNFilTvagV~Av~lLl 20 (75)
|..||.|=.+..+||...+-
T Consensus 30 MS~tNAIsgii~vGa~~~~~ 49 (87)
T PF12769_consen 30 MSVTNAISGIIIVGAMIAAG 49 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHc
Confidence 67899999888888876653
No 85
>PF12597 DUF3767: Protein of unknown function (DUF3767); InterPro: IPR022533 This group of proteins includes mitochodrial cytochrome c oxidase proteins [], and some transmembrane domain-containing proteins of unknown function known as FAM36A. Proteins in this family are typically between 112 and 199 amino acids in length.
Probab=23.71 E-value=34 Score=23.20 Aligned_cols=23 Identities=26% Similarity=0.375 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHhHHHhHH
Q 035051 7 ILTVAGVSAVVLLLRSDVKQSAS 29 (75)
Q Consensus 7 ilTvagV~Av~lLlrsDVrqS~a 29 (75)
|.+-+|||++-.|+++.++.|+.
T Consensus 48 i~~G~~vG~~~fl~~~~~~~A~n 70 (118)
T PF12597_consen 48 IAGGFGVGGLRFLFTSNPRKAAN 70 (118)
T ss_pred HHHHHHHHhhhhcccCCCccchh
Confidence 55677888888999998888864
No 86
>PF00435 Spectrin: Spectrin repeat; InterPro: IPR002017 Spectrin repeats [] are found in several proteins involved in cytoskeletal structure. These include spectrin alpha and beta subunits [, ], alpha-actinin [] and dystrophin. The spectrin repeat forms a three-helix bundle. The second helix is interrupted by proline in some sequences. The repeats are defined by a characteristic tryptophan (W) residue at position 17 in helix A and a leucine (L) at 2 residues from the carboxyl end of helix C.; GO: 0005515 protein binding; PDB: 1HCI_A 1QUU_A 3FB2_B 1S35_A 1U5P_A 1U4Q_A 1CUN_B 1YDI_B 3EDV_A 1AJ3_A ....
Probab=23.70 E-value=89 Score=17.41 Aligned_cols=19 Identities=21% Similarity=0.653 Sum_probs=15.4
Q ss_pred HHHHHhHHHHHHHHHHHHH
Q 035051 29 SIFRRNVKHIRNWLEEEST 47 (75)
Q Consensus 29 a~fRRN~rhIR~WlEEe~~ 47 (75)
.-|.+++..+-.||.+-..
T Consensus 4 ~~f~~~~~~l~~Wl~~~e~ 22 (105)
T PF00435_consen 4 QQFQQEADELLDWLQETEA 22 (105)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3588999999999998543
No 87
>PRK00708 sec-independent translocase; Provisional
Probab=23.56 E-value=1.8e+02 Score=22.01 Aligned_cols=16 Identities=6% Similarity=0.407 Sum_probs=7.2
Q ss_pred chHHHHHHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVSAVVLL 19 (75)
Q Consensus 2 AlTNFilTvagV~Av~lL 19 (75)
+|+-|+| .+|.+++++
T Consensus 5 G~~ELlv--I~vVaLvV~ 20 (209)
T PRK00708 5 GWSELLV--IAIVLIVVV 20 (209)
T ss_pred cHHHHHH--HHHHHHhhc
Confidence 4555544 333444443
No 88
>cd00086 homeodomain Homeodomain; DNA binding domains involved in the transcriptional regulation of key eukaryotic developmental processes; may bind to DNA as monomers or as homo- and/or heterodimers, in a sequence-specific manner.
Probab=23.45 E-value=1.1e+02 Score=16.24 Aligned_cols=24 Identities=8% Similarity=0.349 Sum_probs=17.9
Q ss_pred HhHHHhHHHHHHhHHHHHHHHHHH
Q 035051 22 SDVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 22 sDVrqS~a~fRRN~rhIR~WlEEe 45 (75)
.++.+-+..+.-..++|++|+...
T Consensus 28 ~~~~~la~~~~l~~~qV~~WF~nr 51 (59)
T cd00086 28 EEREELAKELGLTERQVKIWFQNR 51 (59)
T ss_pred HHHHHHHHHHCcCHHHHHHHHHHH
Confidence 355566667777889999999764
No 89
>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional
Probab=23.22 E-value=84 Score=26.26 Aligned_cols=29 Identities=21% Similarity=0.261 Sum_probs=24.5
Q ss_pred chHHHHHHHHHHHHHHHHHHHhHHHhHHH
Q 035051 2 ALTNFILTVAGVSAVVLLLRSDVKQSASI 30 (75)
Q Consensus 2 AlTNFilTvagV~Av~lLlrsDVrqS~a~ 30 (75)
++.||.|-+.+|+..++|++.|-++.-..
T Consensus 238 ~~~nlaI~igav~~f~~L~~~e~k~~e~q 266 (453)
T PLN03098 238 TAGNAAINIGGIVAFVSLFLWENKKEEEQ 266 (453)
T ss_pred hhcccchHHHHHHHHHHHHHHHhcccHHH
Confidence 46899999999999999999998865543
No 90
>COG1845 CyoC Heme/copper-type cytochrome/quinol oxidase, subunit 3 [Energy production and conversion]
Probab=22.91 E-value=1.7e+02 Score=21.64 Aligned_cols=32 Identities=28% Similarity=0.304 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHhHH--HhHHHHHHhHHHHHHHHH
Q 035051 12 GVSAVVLLLRSDVK--QSASIFRRNVKHIRNWLE 43 (75)
Q Consensus 12 gV~Av~lLlrsDVr--qS~a~fRRN~rhIR~WlE 43 (75)
.+=.++||.+|=.= --.++-|+|.|..|.||-
T Consensus 77 ~inT~iLl~SS~t~~~A~~a~~~~~~~~~~~wL~ 110 (209)
T COG1845 77 LINTFILLSSSFTCGLAVHALRRGNRKGARAWLL 110 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHH
Confidence 33344555544222 234678999999999984
No 91
>PF15466 DUF4635: Domain of unknown function (DUF4635)
Probab=22.82 E-value=59 Score=23.57 Aligned_cols=14 Identities=50% Similarity=0.919 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHH
Q 035051 34 NVKHIRNWLEEEST 47 (75)
Q Consensus 34 N~rhIR~WlEEe~~ 47 (75)
-+|.||+||.|.--
T Consensus 84 Pik~~r~WLkenLh 97 (135)
T PF15466_consen 84 PIKAIRNWLKENLH 97 (135)
T ss_pred hHHHHHHHHHHHHH
Confidence 37899999998644
No 92
>PF04995 CcmD: Heme exporter protein D (CcmD); InterPro: IPR007078 The CcmD protein is part of a C-type cytochrome biogenesis operon []. The exact function of this protein is uncertain. It has been proposed that CcmC, CcmD and CcmE interact directly with each other, establishing a cytoplasm to periplasm haem delivery pathway for cytochrome c maturation []. This protein is found fused to CcmE in P52224 from SWISSPROT. These proteins contain a predicted transmembrane helix.; GO: 0006810 transport, 0016021 integral to membrane
Probab=22.79 E-value=1.6e+02 Score=16.59 Aligned_cols=24 Identities=4% Similarity=0.127 Sum_probs=11.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHH
Q 035051 3 LTNFILTVAGVSAVVLLLRSDVKQ 26 (75)
Q Consensus 3 lTNFilTvagV~Av~lLlrsDVrq 26 (75)
|+-|-+|++.+++.++....|-|+
T Consensus 8 W~sYg~t~~~l~~l~~~~~~~~r~ 31 (46)
T PF04995_consen 8 WSSYGVTALVLAGLIVWSLRRRRR 31 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344455555555544444444333
No 93
>PF13551 HTH_29: Winged helix-turn helix
Probab=22.66 E-value=99 Score=18.28 Aligned_cols=22 Identities=14% Similarity=0.320 Sum_probs=19.2
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
+.+.+..|..+-++|++|+..-
T Consensus 15 ~~~ia~~lg~s~~Tv~r~~~~~ 36 (112)
T PF13551_consen 15 IAEIARRLGISRRTVYRWLKRY 36 (112)
T ss_pred HHHHHHHHCcCHHHHHHHHHHH
Confidence 6788999999999999999763
No 94
>PF13384 HTH_23: Homeodomain-like domain; PDB: 2X48_C.
Probab=22.64 E-value=98 Score=16.46 Aligned_cols=22 Identities=9% Similarity=0.368 Sum_probs=16.8
Q ss_pred hHHHhHHHHHHhHHHHHHHHHH
Q 035051 23 DVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 23 DVrqS~a~fRRN~rhIR~WlEE 44 (75)
-+++-+..|--+..+|++|+..
T Consensus 19 s~~~ia~~lgvs~~Tv~~w~kr 40 (50)
T PF13384_consen 19 SIREIAKRLGVSRSTVYRWIKR 40 (50)
T ss_dssp -HHHHHHHHTS-HHHHHHHHT-
T ss_pred CHHHHHHHHCcCHHHHHHHHHH
Confidence 4678889999999999999865
No 95
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=22.56 E-value=1.1e+02 Score=18.20 Aligned_cols=13 Identities=23% Similarity=0.511 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHH
Q 035051 6 FILTVAGVSAVVL 18 (75)
Q Consensus 6 FilTvagV~Av~l 18 (75)
+.+|+.|.+.|++
T Consensus 5 l~i~i~Gm~iVF~ 17 (79)
T PF04277_consen 5 LQIMIIGMGIVFL 17 (79)
T ss_pred HHHHHHHHHHHHH
Confidence 4455566555544
No 96
>PF11026 DUF2721: Protein of unknown function (DUF2721); InterPro: IPR021279 This family is conserved in bacteria. The function is not known.
Probab=22.26 E-value=2.3e+02 Score=18.91 Aligned_cols=28 Identities=25% Similarity=0.389 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHHHHHhHHHhHHHHHH
Q 035051 6 FILTVAGVSAVVLLLRSDVKQSASIFRR 33 (75)
Q Consensus 6 FilTvagV~Av~lLlrsDVrqS~a~fRR 33 (75)
|++.+..+.+...++-.||+-|..-+|.
T Consensus 101 F~~am~~l~~sl~~fl~Ev~ls~~al~~ 128 (130)
T PF11026_consen 101 FVLAMLLLIASLVLFLREVRLSTRALRI 128 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 6667777777778888899988877664
No 97
>PTZ00234 variable surface protein Vir12; Provisional
Probab=22.04 E-value=81 Score=25.83 Aligned_cols=19 Identities=16% Similarity=0.184 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 035051 4 TNFILTVAGVSAVVLLLRS 22 (75)
Q Consensus 4 TNFilTvagV~Av~lLlrs 22 (75)
-|.|+.||.+|.++.||-.
T Consensus 365 rniim~~ailGtifFlfyy 383 (433)
T PTZ00234 365 RHSIVGASIIGVLVFLFFF 383 (433)
T ss_pred HHHHHHHHHHHHHHHhhhh
Confidence 4789999999999999865
No 98
>PRK07417 arogenate dehydrogenase; Reviewed
Probab=21.62 E-value=1.3e+02 Score=21.57 Aligned_cols=23 Identities=17% Similarity=0.465 Sum_probs=15.8
Q ss_pred hHHHhHHHHHHhHHHHHHHHHHH
Q 035051 23 DVKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 23 DVrqS~a~fRRN~rhIR~WlEEe 45 (75)
.|.++-.-|++.+.++|++|+++
T Consensus 236 ~i~~~l~~~~~~l~~~~~~l~~~ 258 (279)
T PRK07417 236 ALLRSLASYRQSLDQLEELIEQE 258 (279)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcC
Confidence 35666667777777777777655
No 99
>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]
Probab=21.44 E-value=67 Score=24.78 Aligned_cols=14 Identities=36% Similarity=0.985 Sum_probs=12.4
Q ss_pred HHhHHHHHHHHHHH
Q 035051 32 RRNVKHIRNWLEEE 45 (75)
Q Consensus 32 RRN~rhIR~WlEEe 45 (75)
|+...||.+|++|-
T Consensus 94 r~sfehv~~w~~ea 107 (213)
T KOG0091|consen 94 RESFEHVENWVKEA 107 (213)
T ss_pred hhhHHHHHHHHHHH
Confidence 77889999999994
No 100
>PF10658 DUF2484: Protein of unknown function (DUF2484); InterPro: IPR018919 A role of this family in UDP-N-acetylenolpyruvoylglucosamine reductase, as MurB, could not be confirmed.
Probab=21.28 E-value=1.8e+02 Score=19.06 Aligned_cols=18 Identities=22% Similarity=0.110 Sum_probs=9.2
Q ss_pred HHHHHHHHHHHHHHHhHH
Q 035051 8 LTVAGVSAVVLLLRSDVK 25 (75)
Q Consensus 8 lTvagV~Av~lLlrsDVr 25 (75)
.++.++.|.+++||--|+
T Consensus 53 ~gl~~L~ag~S~lRwPv~ 70 (77)
T PF10658_consen 53 WGLLVLAAGMSMLRWPVI 70 (77)
T ss_pred HHHHHHHHHHHHHHhHHH
Confidence 455555565555444443
No 101
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=21.22 E-value=1.2e+02 Score=21.31 Aligned_cols=18 Identities=33% Similarity=0.440 Sum_probs=13.3
Q ss_pred hHHHHHHHHHHHHHHHHH
Q 035051 3 LTNFILTVAGVSAVVLLL 20 (75)
Q Consensus 3 lTNFilTvagV~Av~lLl 20 (75)
|.=|++|.|.|.++|=|+
T Consensus 18 WeIfLItLasVvvavGl~ 35 (106)
T PF14654_consen 18 WEIFLITLASVVVAVGLF 35 (106)
T ss_pred hHHHHHHHHHHHHHHHHH
Confidence 566888888877776654
No 102
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=21.16 E-value=3.2e+02 Score=19.48 Aligned_cols=34 Identities=9% Similarity=0.036 Sum_probs=16.1
Q ss_pred HHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHH
Q 035051 10 VAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLE 43 (75)
Q Consensus 10 vagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlE 43 (75)
++++.+..-++...=++--.-..++++.+|.||.
T Consensus 260 ~asl~~a~~~~~~~g~~~~~~~~~~~~~~r~~l~ 293 (294)
T cd00615 260 LASLDVARAMMALEGKELVEELIELALYARQEIN 293 (294)
T ss_pred HHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHh
Confidence 3444444433332223333445566666666664
No 103
>PF13411 MerR_1: MerR HTH family regulatory protein; PDB: 2JML_A 3GP4_A 3GPV_B.
Probab=21.06 E-value=83 Score=17.59 Aligned_cols=22 Identities=18% Similarity=0.317 Sum_probs=15.8
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
+.+.+.++-=+.+.||.|.+++
T Consensus 3 i~eva~~~gvs~~tlr~y~~~g 24 (69)
T PF13411_consen 3 IKEVAKLLGVSPSTLRYYEREG 24 (69)
T ss_dssp HHHHHHHTTTTHHHHHHHHHTT
T ss_pred HHHHHHHHCcCHHHHHHHHHhc
Confidence 3455666666788999997765
No 104
>PRK11119 proX glycine betaine transporter periplasmic subunit; Provisional
Probab=21.04 E-value=2e+02 Score=21.97 Aligned_cols=43 Identities=16% Similarity=0.377 Sum_probs=31.9
Q ss_pred hHHHHHHHHHHHHHHHHHHH------hHHH-hHHHHHHhHHHHHHHHHHH
Q 035051 3 LTNFILTVAGVSAVVLLLRS------DVKQ-SASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 3 lTNFilTvagV~Av~lLlrs------DVrq-S~a~fRRN~rhIR~WlEEe 45 (75)
|.||-+|..-++.....+.. |+.+ ...-++.|-..++.||+.-
T Consensus 277 L~~~~l~~e~~~~l~~~i~~~~~~~~~~~~aA~~Wl~~n~d~v~~Wl~~~ 326 (331)
T PRK11119 277 FEIMKLPLADINAQNLRMHEGESSEADIERHVDGWIKAHQAQFDGWVKEA 326 (331)
T ss_pred HHhcCCCHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHCHHHHHHHHHHH
Confidence 56777888888888777753 4433 4556789999999999774
No 105
>PF00672 HAMP: HAMP domain; InterPro: IPR003660 The HAMP linker domain (present in Histidine kinases, Adenyl cyclases, Methyl-accepting proteins and Phosphatases) is an approximately 50-amino acid alpha-helical region. It is found in bacterial sensor and chemotaxis proteins and in eukaryotic histidine kinases. The bacterial proteins are usually integral membrane proteins and part of a two-component signal transduction pathway. One or several copies of the HAMP domain can be found in association with other domains, such as the histidine kinase domain, the bacterial chemotaxis sensory transducer domain, the PAS repeat, the EAL domain, the GGDEF domain, the protein phosphatase 2C-like domain, the guanylate cyclase domain, or the response regulatory domain. It has been suggested that the HAMP domain possesses a role of regulating the phosphorylation or methylation of homodimeric receptors by transmitting the conformational changes in periplasmic ligand-binding domains to cytoplasmic signalling kinase and methyl-acceptor domains.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016021 integral to membrane; PDB: 3PJX_A 3PJW_A 3ZX6_B 2Y20_B 2Y0Q_D 2Y21_H 3ZRW_C 2L7H_B 2LFS_B 2L7I_B ....
Probab=20.89 E-value=36 Score=18.77 Aligned_cols=20 Identities=10% Similarity=0.124 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHHHHHhHHHh
Q 035051 8 LTVAGVSAVVLLLRSDVKQS 27 (75)
Q Consensus 8 lTvagV~Av~lLlrsDVrqS 27 (75)
++++....+++++.+-+.+.
T Consensus 7 ~~~~~~~~~~~~~~~~i~~p 26 (70)
T PF00672_consen 7 IILLLSLLLAWLLARRITRP 26 (70)
T ss_dssp HHHHHHHHHHHH--HTTCCC
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33333344444444444433
No 106
>PRK10874 cysteine sulfinate desulfinase; Provisional
Probab=20.82 E-value=3.4e+02 Score=19.89 Aligned_cols=36 Identities=17% Similarity=0.136 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 5 NFILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 5 NFilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
|+...++...|+-.|...+..+ .++..++++.+|.+
T Consensus 275 ~~~~~~al~~al~~l~~~g~~~----~~~~~~~l~~~l~~ 310 (401)
T PRK10874 275 NVAGVIGLSAALEWLADIDINQ----AESWSRSLATLAED 310 (401)
T ss_pred CHHHHHHHHHHHHHHHHhCHHH----HHHHHHHHHHHHHH
Confidence 4444445555555554444443 34444445555554
No 107
>PF01765 RRF: Ribosome recycling factor; InterPro: IPR023584 The ribosome recycling factor or ribosome release factor (RRF) dissociates ribosomes from mRNA after termination of translation, and is essential for bacterial growth []. Thus ribosomes are 'recycled' and ready for another round of protein synthesis. This entry represents a domain found in ribosome recycling factors.; PDB: 3R8N_Y 1Y69_8 1ISE_A 1EK8_A 1DD5_A 1WIH_A 2Z4L_6 2QBE_6 2V46_Y 1EH1_A ....
Probab=20.65 E-value=1.5e+02 Score=20.34 Aligned_cols=23 Identities=22% Similarity=0.216 Sum_probs=17.4
Q ss_pred HHHhHHHhHHHHHHhHHHHHHHH
Q 035051 20 LRSDVKQSASIFRRNVKHIRNWL 42 (75)
Q Consensus 20 lrsDVrqS~a~fRRN~rhIR~Wl 42 (75)
+-..+++-+.-+|.++|+||.=.
T Consensus 95 l~k~~k~~~E~~k~~iR~iR~~~ 117 (165)
T PF01765_consen 95 LVKQAKKIAEEAKVSIRNIRRDA 117 (165)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34677888888888888888733
No 108
>cd00613 GDC-P Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1.2.10 (GDC) also annotated as glycine cleavage system or glycine synthase. GDC consists of four proteins P, H, L and T. The reaction catalysed by this protein is: Glycine + lipoylprotein <= S-aminomethyldihydrolipoylprotein + CO2. Alpha-beta-type dimers associate to form an alpha(2)beta(2) tetramer, where the alpha- and beta-subunits are structurally similar and appear to have arisen by gene duplication and subsequent divergence with a loss of one active site. The members of this CD are widely dispersed among all three forms of cellular life.
Probab=20.60 E-value=3.4e+02 Score=19.59 Aligned_cols=24 Identities=21% Similarity=0.187 Sum_probs=15.8
Q ss_pred HHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 21 RSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 21 rsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
..++.+..+..+++...++..|.+
T Consensus 303 ~~g~~~~~~~~~~~~~~l~~~L~~ 326 (398)
T cd00613 303 PEGLKEIAERAHLNANYLAKRLKE 326 (398)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445666666677777777777755
No 109
>CHL00114 psbX photosystem II protein X; Reviewed
Probab=20.56 E-value=1.4e+02 Score=17.61 Aligned_cols=13 Identities=23% Similarity=0.253 Sum_probs=8.5
Q ss_pred chHHHHHHHHHHH
Q 035051 2 ALTNFILTVAGVS 14 (75)
Q Consensus 2 AlTNFilTvagV~ 14 (75)
.|+||+.....-+
T Consensus 4 SLsnF~~SL~~Ga 16 (39)
T CHL00114 4 SLSAFINSLLLGA 16 (39)
T ss_pred hHHHHHHHHHHHH
Confidence 4789987654433
No 110
>TIGR03812 tyr_de_CO2_Arch tyrosine decarboxylase MnfA. Members of this protein family are the archaeal form, MnfA, of tyrosine decarboxylase, and are involved in methanofuran biosynthesis. Members show clear homology to the Enterococcus form, Tdc, that is involved in tyrosine decarboxylation for resistance to acidic conditions.
Probab=20.55 E-value=3.3e+02 Score=19.40 Aligned_cols=24 Identities=13% Similarity=0.152 Sum_probs=15.5
Q ss_pred HHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 21 RSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 21 rsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
+.+..+..+-.+++.+.++.+|++
T Consensus 283 ~~g~~~~~~~~~~~~~~l~~~L~~ 306 (373)
T TIGR03812 283 REGYRKIVAECMENTRYLVEELKK 306 (373)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555566667777777777765
No 111
>PTZ00203 cathepsin L protease; Provisional
Probab=20.50 E-value=79 Score=24.55 Aligned_cols=15 Identities=27% Similarity=0.441 Sum_probs=12.4
Q ss_pred HHHHHHhHHHHHHHH
Q 035051 28 ASIFRRNVKHIRNWL 42 (75)
Q Consensus 28 ~a~fRRN~rhIR~Wl 42 (75)
-.+|++|++.|..+=
T Consensus 59 ~~iF~~N~~~I~~~N 73 (348)
T PTZ00203 59 LANFERNLELMREHQ 73 (348)
T ss_pred HHHHHHHHHHHHHHh
Confidence 368999999998763
No 112
>PF14574 DUF4445: Domain of unknown function (DUF4445); PDB: 3ZYY_X.
Probab=20.32 E-value=55 Score=26.45 Aligned_cols=29 Identities=28% Similarity=0.338 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHhHHHhHHHHHHhHHHH
Q 035051 10 VAGVSAVVLLLRSDVKQSASIFRRNVKHI 38 (75)
Q Consensus 10 vagV~Av~lLlrsDVrqS~a~fRRN~rhI 38 (75)
.|+.||..+|+..|-|+-..-+.++++||
T Consensus 366 ~al~GA~~~Ll~~~~~~~~~~l~~~~~~i 394 (412)
T PF14574_consen 366 AALAGARMALLSRDAREEAEELARKIEYI 394 (412)
T ss_dssp HHHHHHHHHHHBHHHHHHHHHHHHHEEE-
T ss_pred HHHHHHHHHhCChhHHHHHHHHHhhCEEE
Confidence 47889999999999888888888887776
No 113
>PF09722 DUF2384: Protein of unknown function (DUF2384); InterPro: IPR024467 This domain is found predominantly in proteobacterial proteins. Its function in unknown.
Probab=20.31 E-value=1.1e+02 Score=17.06 Aligned_cols=20 Identities=30% Similarity=0.665 Sum_probs=16.4
Q ss_pred HHhHHHHHHhHHHHHHHHHHH
Q 035051 25 KQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 25 rqS~a~fRRN~rhIR~WlEEe 45 (75)
++...+| .|....+.||...
T Consensus 2 ~~a~~vf-gd~~~a~~Wl~~p 21 (54)
T PF09722_consen 2 KQAEEVF-GDEDKARRWLRTP 21 (54)
T ss_pred hHHHHHH-CCHHHHHHHHHCh
Confidence 5667788 8999999999864
No 114
>PF00376 MerR: MerR family regulatory protein; InterPro: IPR000551 The many bacterial transcription regulation proteins which bind DNA through a 'helix-turn-helix' motif can be classified into subfamilies on the basis of sequence similarities. One of these is the MerR subfamily. MerR, which is found in many bacterial species mediates the mercuric-dependent induction of the mercury resistance operon. In the absence of mercury merR represses transcription by binding tightly, as a dimer, to the 'mer' operator region; when mercury is present the dimeric complex binds a single ion and becomes a potent transcriptional activator, while remaining bound to the mer site. Members of the family include the mercuric resistance operon regulatory protein merR; Bacillus subtilis bltR and bmrR; Bacillus glnR; Streptomyces coelicolor hspR; Bradyrhizobium japonicum nolA; Escherichia coli superoxide response regulator soxR; and Streptomyces lividans transcriptional activator tipA [, , , , , ]. Other members include hypothetical proteins from E. coli, B. subtilis and Haemophilus influenzae. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3HH0_A 2DG6_A 1R8D_B 1JBG_A 2VZ4_A 2ZHH_A 2ZHG_A 1Q07_A 1Q06_A 1Q05_B ....
Probab=20.30 E-value=1.1e+02 Score=16.69 Aligned_cols=22 Identities=14% Similarity=0.291 Sum_probs=16.3
Q ss_pred HHHhHHHHHHhHHHHHHHHHHH
Q 035051 24 VKQSASIFRRNVKHIRNWLEEE 45 (75)
Q Consensus 24 VrqS~a~fRRN~rhIR~WlEEe 45 (75)
|.+-|.++-=..+.||.|=+++
T Consensus 2 i~e~A~~~gvs~~tlR~ye~~G 23 (38)
T PF00376_consen 2 IGEVAKLLGVSPRTLRYYEREG 23 (38)
T ss_dssp HHHHHHHHTS-HHHHHHHHHTT
T ss_pred HHHHHHHHCCCHHHHHHHHHCC
Confidence 3456778888899999997765
No 115
>PF11188 DUF2975: Protein of unknown function (DUF2975); InterPro: IPR021354 This family of proteins have no known function. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=20.19 E-value=2.1e+02 Score=17.69 Aligned_cols=19 Identities=11% Similarity=0.426 Sum_probs=13.4
Q ss_pred HhHHHhHHHHHHhHHHHHH
Q 035051 22 SDVKQSASIFRRNVKHIRN 40 (75)
Q Consensus 22 sDVrqS~a~fRRN~rhIR~ 40 (75)
+++++..--=++|+|++|.
T Consensus 48 ~~i~~~~~Fs~~n~~~l~~ 66 (136)
T PF11188_consen 48 RNIQKGKPFSPENIRRLRR 66 (136)
T ss_pred HHHHCCCcchHHHHHHHHH
Confidence 4577775555789998874
No 116
>COG1377 FlhB Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=20.17 E-value=2e+02 Score=23.39 Aligned_cols=42 Identities=10% Similarity=0.044 Sum_probs=35.2
Q ss_pred hHHHHHHHHHHHHHHHHHHHhHHHhHHHHHHhHHHHHHHHHH
Q 035051 3 LTNFILTVAGVSAVVLLLRSDVKQSASIFRRNVKHIRNWLEE 44 (75)
Q Consensus 3 lTNFilTvagV~Av~lLlrsDVrqS~a~fRRN~rhIR~WlEE 44 (75)
++.++..++|+....++....++.-+.+|+..+.+-+.|.-+
T Consensus 33 l~~a~~ll~g~~~l~~~~~~~~~~l~~~l~~~~~~~~~~~~~ 74 (363)
T COG1377 33 LTSAASLLVGFLLLFFFGSYFARRLSGFLRAFLEFPESMDLD 74 (363)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccccC
Confidence 567788888888888888889999999999999987766544
No 117
>PRK08541 flagellin; Validated
Probab=20.09 E-value=85 Score=23.58 Aligned_cols=16 Identities=44% Similarity=0.532 Sum_probs=11.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 035051 7 ILTVAGVSAVVLLLRS 22 (75)
Q Consensus 7 ilTvagV~Av~lLlrs 22 (75)
++.||+|+|.||+=.+
T Consensus 17 mVLVAAVAA~VLInTs 32 (211)
T PRK08541 17 MVLVAAVAAAVLINTS 32 (211)
T ss_pred HHHHHHHHHHHhhcch
Confidence 3678889888887443
Done!