Query 043708
Match_columns 254
No_of_seqs 122 out of 219
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 07:35:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/043708.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/043708hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03141 Methyltransf_29: Puta 100.0 1.3E-29 2.8E-34 242.3 4.8 71 184-254 19-107 (506)
2 KOG1619 Cytochrome b [Energy p 62.6 7.9 0.00017 35.9 3.2 32 2-33 6-40 (245)
3 PF07172 GRP: Glycine rich pro 57.7 8.6 0.00019 30.4 2.3 22 19-40 6-27 (95)
4 PF12553 DUF3742: Protein of u 56.7 10 0.00022 27.7 2.3 18 20-37 3-20 (54)
5 PF00672 HAMP: HAMP domain; I 56.2 14 0.0003 25.0 2.8 26 15-40 2-27 (70)
6 PF13172 PepSY_TM_1: PepSY-ass 53.5 15 0.00033 23.6 2.5 23 10-32 9-31 (34)
7 PF13624 SurA_N_3: SurA N-term 49.5 1.7 3.7E-05 33.8 -2.8 32 27-59 27-58 (154)
8 PF06724 DUF1206: Domain of Un 48.9 19 0.00041 26.0 2.7 24 11-34 44-67 (73)
9 PRK14125 cell division suppres 46.8 22 0.00048 28.3 3.0 20 18-38 11-30 (103)
10 PRK05696 fliL flagellar basal 46.4 22 0.00049 29.7 3.1 15 26-40 35-49 (170)
11 PF14991 MLANA: Protein melan- 42.7 7.8 0.00017 32.7 -0.1 20 13-32 28-47 (118)
12 PF14341 PilX_N: PilX N-termin 41.5 25 0.00054 24.5 2.3 25 12-36 3-27 (51)
13 PF10828 DUF2570: Protein of u 40.4 26 0.00055 27.7 2.5 17 10-26 2-18 (110)
14 PF13800 Sigma_reg_N: Sigma fa 39.9 25 0.00054 26.6 2.2 23 13-35 14-36 (96)
15 PF12911 OppC_N: N-terminal TM 39.7 28 0.00061 23.5 2.3 19 13-31 20-38 (56)
16 PF12273 RCR: Chitin synthesis 39.5 26 0.00056 28.0 2.4 18 14-31 4-21 (130)
17 PF09889 DUF2116: Uncharacteri 39.4 34 0.00074 25.4 2.8 14 22-35 45-58 (59)
18 KOG3142 Prenylated rab accepto 37.8 28 0.00061 31.0 2.5 24 10-33 71-105 (187)
19 PRK10476 multidrug resistance 37.3 32 0.00069 30.8 2.9 38 7-44 5-42 (346)
20 COG1987 FliQ Flagellar biosynt 37.0 28 0.00061 28.1 2.2 16 18-33 56-71 (89)
21 PF05545 FixQ: Cbb3-type cytoc 36.6 44 0.00094 22.9 2.8 21 14-34 12-32 (49)
22 PF03779 SPW: SPW repeat; Int 36.1 20 0.00043 25.5 1.1 18 23-40 4-21 (51)
23 PF12729 4HB_MCP_1: Four helix 34.3 41 0.00089 25.0 2.6 23 13-35 11-33 (181)
24 PF09680 Tiny_TM_bacill: Prote 34.3 30 0.00065 22.3 1.6 17 13-29 5-21 (24)
25 PF03929 PepSY_TM: PepSY-assoc 34.1 44 0.00095 21.4 2.3 21 12-32 7-27 (27)
26 PF02950 Conotoxin: Conotoxin; 32.4 15 0.00032 26.2 0.0 12 16-27 3-14 (75)
27 COG4068 Uncharacterized protei 32.4 40 0.00088 26.0 2.3 18 15-32 44-61 (64)
28 COG3115 ZipA Cell division pro 31.4 33 0.00072 33.1 2.1 20 12-31 7-26 (324)
29 PF13908 Shisa: Wnt and FGF in 31.2 29 0.00063 28.8 1.5 28 11-38 77-104 (179)
30 PF11807 DUF3328: Domain of un 30.6 77 0.0017 25.1 3.7 23 10-32 11-33 (217)
31 PRK01294 lipase chaperone; Pro 30.3 59 0.0013 30.6 3.5 20 14-33 5-24 (336)
32 cd08762 Cyt_b561_CYBASC3 Verte 30.0 46 0.001 29.3 2.6 21 13-33 1-21 (179)
33 PF03839 Sec62: Translocation 29.6 31 0.00068 31.2 1.5 6 35-40 177-182 (224)
34 COG5353 Uncharacterized protei 29.4 44 0.00095 29.6 2.4 26 14-40 9-34 (161)
35 PF07423 DUF1510: Protein of u 29.0 78 0.0017 28.6 3.9 58 156-214 137-203 (217)
36 PRK10299 PhoPQ regulatory prot 28.5 57 0.0012 23.9 2.4 20 16-36 7-26 (47)
37 PF14285 DUF4367: Domain of un 28.1 45 0.00097 26.1 2.0 24 12-35 1-24 (168)
38 PF11660 DUF3262: Protein of u 27.3 61 0.0013 24.5 2.6 25 14-38 22-46 (76)
39 PF13665 DUF4150: Domain of un 26.5 33 0.00072 27.7 1.0 17 198-216 10-26 (110)
40 TIGR01732 tiny_TM_bacill conse 25.7 53 0.0011 21.5 1.6 16 14-29 8-23 (26)
41 PF01313 Bac_export_3: Bacteri 25.6 63 0.0014 24.9 2.3 16 18-33 53-68 (76)
42 PRK14859 tatA twin arginine tr 25.3 43 0.00093 25.2 1.4 14 16-29 9-22 (63)
43 PRK03625 tatE twin arginine tr 24.9 41 0.00089 25.6 1.2 14 16-29 9-22 (67)
44 PRK06010 fliQ flagellar biosyn 24.9 64 0.0014 25.6 2.3 16 18-33 56-71 (88)
45 KOG2927 Membrane component of 24.4 73 0.0016 31.4 3.1 39 16-58 232-275 (372)
46 TIGR01167 LPXTG_anchor LPXTG-m 24.4 1.1E+02 0.0025 18.8 3.0 27 6-32 2-28 (34)
47 PF10749 DUF2534: Protein of u 24.1 53 0.0012 26.5 1.8 29 4-32 7-35 (85)
48 TIGR01403 fliQ_rel_III type II 24.1 67 0.0014 25.1 2.3 16 18-33 52-67 (81)
49 PF02416 MttA_Hcf106: mttA/Hcf 24.0 48 0.0011 23.6 1.4 13 16-28 6-18 (53)
50 PF13706 PepSY_TM_3: PepSY-ass 23.7 92 0.002 20.5 2.6 24 10-33 8-31 (37)
51 PF03866 HAP: Hydrophobic abun 23.4 59 0.0013 28.7 2.0 15 20-34 5-19 (164)
52 PRK05700 fliQ flagellar biosyn 23.1 70 0.0015 25.3 2.2 16 18-33 56-71 (89)
53 PRK02958 tatA twin arginine tr 22.9 52 0.0011 25.5 1.4 14 16-29 9-22 (73)
54 PF14030 DUF4245: Protein of u 22.7 1.1E+02 0.0025 25.9 3.6 21 13-33 8-28 (169)
55 TIGR01402 fliQ flagellar biosy 22.5 73 0.0016 25.2 2.2 16 18-33 56-71 (88)
56 PF08733 PalH: PalH/RIM21; In 22.1 76 0.0017 29.8 2.7 27 12-38 80-106 (348)
57 PRK12785 fliL flagellar basal 22.1 26 0.00056 29.5 -0.4 19 17-35 31-49 (166)
58 PRK15350 type III secretion sy 21.7 80 0.0017 25.0 2.3 16 18-33 56-71 (88)
59 TIGR02832 spo_yunB sporulation 21.7 78 0.0017 28.1 2.5 29 11-40 4-32 (204)
60 PF14998 Ripply: Transcription 21.5 39 0.00084 27.2 0.5 17 203-219 35-53 (87)
61 PF10601 zf-LITAF-like: LITAF- 21.4 66 0.0014 23.3 1.7 24 9-32 21-44 (73)
62 PRK12781 fliQ flagellar biosyn 21.2 83 0.0018 25.0 2.3 16 18-33 56-71 (88)
63 PTZ00382 Variant-specific surf 21.1 39 0.00085 26.5 0.5 20 14-33 71-91 (96)
64 TIGR02205 septum_zipA cell div 21.0 50 0.0011 30.8 1.2 20 13-32 6-25 (284)
65 PRK10549 signal transduction h 20.9 77 0.0017 28.1 2.3 15 1-15 1-15 (466)
66 PF03954 Lectin_N: Hepatic lec 20.8 52 0.0011 28.4 1.2 15 14-28 40-54 (138)
67 PF02532 PsbI: Photosystem II 20.6 80 0.0017 22.1 1.9 15 15-29 9-23 (36)
68 PF12012 DUF3504: Domain of un 20.4 65 0.0014 26.6 1.6 33 198-230 127-159 (172)
69 TIGR03745 conj_TIGR03745 integ 20.2 79 0.0017 26.2 2.1 21 16-36 81-101 (104)
70 PF02340 PRRSV_Env: PRRSV puta 20.1 56 0.0012 30.4 1.3 36 6-41 1-41 (234)
71 TIGR02830 spore_III_AG stage I 20.0 1.5E+02 0.0033 26.2 3.9 23 18-40 3-25 (186)
No 1
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=99.95 E-value=1.3e-29 Score=242.33 Aligned_cols=71 Identities=52% Similarity=0.866 Sum_probs=65.7
Q ss_pred ccceeEeccCCC--CCCcccccCCCCCCCCCCCCCccccccccCCCCcccccccc----------------CCCcCcCcH
Q 043708 184 GHRWKIWRYCPE--EACTSIAPLPEGYKRSIKWPKSRDRIWYYNFPHTKLSEVKG----------------GETQFENGA 245 (254)
Q Consensus 184 ~y~WkLcRHCPe--e~~~CLVPpP~GYK~PIrWPkSRDkIWy~NVPHTkLae~KG----------------GGTqF~~GA 245 (254)
...=.++||||. ++++||||+|+|||+||+||+|||+|||+||||++|+++|+ |||||++||
T Consensus 19 ~~~~~rERhCP~~~~~~~CLVp~P~gYk~P~~WP~SRd~iW~~Nvph~~L~~~K~~qnWv~~~gd~~~FPgggt~F~~Ga 98 (506)
T PF03141_consen 19 ERMEHRERHCPPPEERLRCLVPPPKGYKTPIPWPKSRDYIWYANVPHTKLAEEKADQNWVRVEGDKFRFPGGGTMFPHGA 98 (506)
T ss_pred ccccEeeccCcCCCCCCccccCCCccCCCCCCCCcccceeeecccCchHHhhhcccccceeecCCEEEeCCCCccccCCH
Confidence 344568999995 89999999999999999999999999999999999999994 999999999
Q ss_pred HHHHHHhhC
Q 043708 246 LHYIDFILK 254 (254)
Q Consensus 246 ~~YID~IaE 254 (254)
++|||+|++
T Consensus 99 ~~Yid~i~~ 107 (506)
T PF03141_consen 99 DHYIDQIAE 107 (506)
T ss_pred HHHHHHHHH
Confidence 999999974
No 2
>KOG1619 consensus Cytochrome b [Energy production and conversion]
Probab=62.61 E-value=7.9 Score=35.91 Aligned_cols=32 Identities=31% Similarity=0.565 Sum_probs=25.2
Q ss_pred ccccCccccchhhhh---HhHHHHHHHHHHHHHhh
Q 043708 2 RLMRMPSIQKFLIVV---TVVVFVGLCLVGVWMLM 33 (254)
Q Consensus 2 ~~~~~~s~~~y~~~~---t~v~fv~lclvgvwm~~ 33 (254)
|+|.||+-.+|.+.+ .++.|+++||||+|++.
T Consensus 6 ~~~~~~~~~~f~~~~~~s~l~G~i~v~lvl~W~~~ 40 (245)
T KOG1619|consen 6 RTKAASSLGRFLIIVVVSHLLGFITVVLVLYWVNT 40 (245)
T ss_pred cccccCCcccchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 677788877765443 37889999999999986
No 3
>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=57.70 E-value=8.6 Score=30.42 Aligned_cols=22 Identities=18% Similarity=0.427 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHhhcCCcccC
Q 043708 19 VVFVGLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 19 v~fv~lclvgvwm~~sssv~p~ 40 (254)
.||++|+|+-|-+++|-.+++.
T Consensus 6 ~llL~l~LA~lLlisSevaa~~ 27 (95)
T PF07172_consen 6 FLLLGLLLAALLLISSEVAARE 27 (95)
T ss_pred HHHHHHHHHHHHHHHhhhhhHH
Confidence 5666666665555555444443
No 4
>PF12553 DUF3742: Protein of unknown function (DUF3742); InterPro: IPR022213 This domain family is found in bacteria, and is approximately 50 amino acids in length. There is a single completely conserved residue Y that may be functionally important.
Probab=56.70 E-value=10 Score=27.66 Aligned_cols=18 Identities=11% Similarity=0.516 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHhhcCCc
Q 043708 20 VFVGLCLVGVWMLMSSSV 37 (254)
Q Consensus 20 ~fv~lclvgvwm~~sssv 37 (254)
+.+++.++++||+.++.+
T Consensus 3 Lll~f~~iaaw~~~~~~~ 20 (54)
T PF12553_consen 3 LLLVFAAIAAWMARNPDI 20 (54)
T ss_pred HHHHHHHHHHHHHhCCcc
Confidence 346677889999998776
No 5
>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=56.23 E-value=14 Score=24.96 Aligned_cols=26 Identities=23% Similarity=0.419 Sum_probs=18.1
Q ss_pred hhHhHHHHHHHHHHHHHhhcCCcccC
Q 043708 15 VVTVVVFVGLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 15 ~~t~v~fv~lclvgvwm~~sssv~p~ 40 (254)
.+.+++++.++++.+|.+..+-..|-
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~i~~pl 27 (70)
T PF00672_consen 2 LVLFLIILLLSLLLAWLLARRITRPL 27 (70)
T ss_dssp HHHHHHHHHHHHHHHHH--HTTCCCH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667777778888888888888776
No 6
>PF13172 PepSY_TM_1: PepSY-associated TM helix
Probab=53.49 E-value=15 Score=23.58 Aligned_cols=23 Identities=17% Similarity=0.429 Sum_probs=19.7
Q ss_pred cchhhhhHhHHHHHHHHHHHHHh
Q 043708 10 QKFLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 10 ~~y~~~~t~v~fv~lclvgvwm~ 32 (254)
-.|...++.++++.+|+-|++|.
T Consensus 9 H~~~g~~~~~~ll~~~lTG~~l~ 31 (34)
T PF13172_consen 9 HRWLGLIAAIFLLLLALTGALLN 31 (34)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Confidence 45788888999999999999885
No 7
>PF13624 SurA_N_3: SurA N-terminal domain; PDB: 3NRK_A.
Probab=49.46 E-value=1.7 Score=33.83 Aligned_cols=32 Identities=19% Similarity=0.062 Sum_probs=10.4
Q ss_pred HHHHHhhcCCcccCCCCCCCCCccccccccccc
Q 043708 27 VGVWMLMSSSVVPDSTNGDGDDVPVEKSENRVE 59 (254)
Q Consensus 27 vgvwm~~sssv~p~~~n~~~~dv~~~ks~~~~~ 59 (254)
+|+|.+.+.. .+...-..-++.++++.|++-+
T Consensus 27 ~~~~~~~~~~-~~~~~vA~V~g~~It~~e~~~~ 58 (154)
T PF13624_consen 27 FGIGGCGSGS-SNNNVVAKVNGEKITKSELDRR 58 (154)
T ss_dssp ---------------EEEEETTEEEEHHHHHHH
T ss_pred HHHHHHhccC-CCCCEEEEECCEEeCHHHHHHH
Confidence 4666654433 3333333445667777776543
No 8
>PF06724 DUF1206: Domain of Unknown Function (DUF1206); InterPro: IPR009597 This region consists of two a pair of transmembrane helices and occurs three times in each of the family member proteins.
Probab=48.86 E-value=19 Score=26.03 Aligned_cols=24 Identities=25% Similarity=0.347 Sum_probs=20.4
Q ss_pred chhhhhHhHHHHHHHHHHHHHhhc
Q 043708 11 KFLIVVTVVVFVGLCLVGVWMLMS 34 (254)
Q Consensus 11 ~y~~~~t~v~fv~lclvgvwm~~s 34 (254)
.|+-++..++-++|..+|+|++..
T Consensus 44 p~G~~ll~~vg~gli~~gi~~~~~ 67 (73)
T PF06724_consen 44 PFGRWLLGAVGLGLIGYGIWQFVK 67 (73)
T ss_pred CCcHHHHHHHHHHHHHHHHHHHHH
Confidence 478888888999999999999864
No 9
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=46.81 E-value=22 Score=28.28 Aligned_cols=20 Identities=25% Similarity=0.406 Sum_probs=11.8
Q ss_pred hHHHHHHHHHHHHHhhcCCcc
Q 043708 18 VVVFVGLCLVGVWMLMSSSVV 38 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~sssv~ 38 (254)
+.+||.||+| +|++...+..
T Consensus 11 ~ii~~~l~~~-~~~~~~~~~~ 30 (103)
T PRK14125 11 SIFFVLTALV-LLIFVYATVP 30 (103)
T ss_pred HHHHHHHHHH-HHHHHHcccc
Confidence 3355555555 8988755443
No 10
>PRK05696 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=46.38 E-value=22 Score=29.68 Aligned_cols=15 Identities=27% Similarity=0.339 Sum_probs=10.5
Q ss_pred HHHHHHhhcCCcccC
Q 043708 26 LVGVWMLMSSSVVPD 40 (254)
Q Consensus 26 lvgvwm~~sssv~p~ 40 (254)
.+|+|+|++....++
T Consensus 35 g~~~~f~l~~~~~~~ 49 (170)
T PRK05696 35 GGAAWFFMGSSDKAA 49 (170)
T ss_pred HHHHHhhhcCCCCCc
Confidence 468999988765443
No 11
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=42.70 E-value=7.8 Score=32.72 Aligned_cols=20 Identities=30% Similarity=0.511 Sum_probs=2.1
Q ss_pred hhhhHhHHHHHHHHHHHHHh
Q 043708 13 LIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~ 32 (254)
++.|.+||..+|.|+|.|-.
T Consensus 28 GIGiL~VILgiLLliGCWYc 47 (118)
T PF14991_consen 28 GIGILIVILGILLLIGCWYC 47 (118)
T ss_dssp SSS-----------------
T ss_pred cceeHHHHHHHHHHHhheee
Confidence 67788999999999999975
No 12
>PF14341 PilX_N: PilX N-terminal
Probab=41.53 E-value=25 Score=24.51 Aligned_cols=25 Identities=32% Similarity=0.497 Sum_probs=19.5
Q ss_pred hhhhhHhHHHHHHHHHHHHHhhcCC
Q 043708 12 FLIVVTVVVFVGLCLVGVWMLMSSS 36 (254)
Q Consensus 12 y~~~~t~v~fv~lclvgvwm~~sss 36 (254)
+.+++++++++.|-|+|+.++.++.
T Consensus 3 ~aLvvaLi~l~vltll~~~~~~~s~ 27 (51)
T PF14341_consen 3 AALVVALIILLVLTLLGVAAMRSST 27 (51)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777777889999999987754
No 13
>PF10828 DUF2570: Protein of unknown function (DUF2570); InterPro: IPR022538 This entry is represented by Bacteriophage IME08, pseT.3. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a family of proteins with unknown function.
Probab=40.39 E-value=26 Score=27.67 Aligned_cols=17 Identities=24% Similarity=0.495 Sum_probs=10.1
Q ss_pred cchhhhhHhHHHHHHHH
Q 043708 10 QKFLIVVTVVVFVGLCL 26 (254)
Q Consensus 10 ~~y~~~~t~v~fv~lcl 26 (254)
+.|...+.+|++|+||.
T Consensus 2 ~~~~~~~l~~lvl~L~~ 18 (110)
T PF10828_consen 2 KKYIYIALAVLVLGLGG 18 (110)
T ss_pred hHHHHHHHHHHHHHHHH
Confidence 45666666666655543
No 14
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=39.89 E-value=25 Score=26.60 Aligned_cols=23 Identities=17% Similarity=0.336 Sum_probs=15.0
Q ss_pred hhhhHhHHHHHHHHHHHHHhhcC
Q 043708 13 LIVVTVVVFVGLCLVGVWMLMSS 35 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~~ss 35 (254)
.-++++.++++|++++++.+++.
T Consensus 14 l~~~~isi~~~lvi~~i~~~~~~ 36 (96)
T PF13800_consen 14 LRTVVISIISALVIFIISFIISA 36 (96)
T ss_pred HHHHHHHHhhhhhhHHHHHHhhh
Confidence 34556666677777777776654
No 15
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=39.72 E-value=28 Score=23.50 Aligned_cols=19 Identities=11% Similarity=0.396 Sum_probs=13.9
Q ss_pred hhhhHhHHHHHHHHHHHHH
Q 043708 13 LIVVTVVVFVGLCLVGVWM 31 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm 31 (254)
...+.++++|.+|++|-|.
T Consensus 20 ~gl~il~~~vl~ai~~p~~ 38 (56)
T PF12911_consen 20 IGLIILLILVLLAIFAPFI 38 (56)
T ss_pred HHHHHHHHHHHHHHHHHHc
Confidence 4556677778888888776
No 16
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=39.49 E-value=26 Score=27.96 Aligned_cols=18 Identities=17% Similarity=0.272 Sum_probs=8.4
Q ss_pred hhhHhHHHHHHHHHHHHH
Q 043708 14 IVVTVVVFVGLCLVGVWM 31 (254)
Q Consensus 14 ~~~t~v~fv~lclvgvwm 31 (254)
+.+.||+++.|+||++..
T Consensus 4 l~~iii~~i~l~~~~~~~ 21 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYC 21 (130)
T ss_pred eHHHHHHHHHHHHHHHHH
Confidence 344444444455544443
No 17
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=39.41 E-value=34 Score=25.43 Aligned_cols=14 Identities=21% Similarity=0.681 Sum_probs=9.1
Q ss_pred HHHHHHHHHHhhcC
Q 043708 22 VGLCLVGVWMLMSS 35 (254)
Q Consensus 22 v~lclvgvwm~~ss 35 (254)
+.+.+++|||++..
T Consensus 45 ~~i~~l~v~~~~~~ 58 (59)
T PF09889_consen 45 IFILFLAVWIFMTF 58 (59)
T ss_pred HHHHHHHHHHHHHh
Confidence 33444789998753
No 18
>KOG3142 consensus Prenylated rab acceptor 1 [Intracellular trafficking, secretion, and vesicular transport]
Probab=37.76 E-value=28 Score=30.96 Aligned_cols=24 Identities=29% Similarity=0.809 Sum_probs=17.3
Q ss_pred cchhhhhHhH-----------HHHHHHHHHHHHhh
Q 043708 10 QKFLIVVTVV-----------VFVGLCLVGVWMLM 33 (254)
Q Consensus 10 ~~y~~~~t~v-----------~fv~lclvgvwm~~ 33 (254)
.||...+.++ ++|-+|+||.|++.
T Consensus 71 ~NY~~iv~~~~~~sLi~~P~~Livl~~lv~~w~~L 105 (187)
T KOG3142|consen 71 VNYVIIVAILLFLSLITHPLSLIVLLALVAAWLFL 105 (187)
T ss_pred HhHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHhe
Confidence 4676666554 45667999999985
No 19
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=37.29 E-value=32 Score=30.79 Aligned_cols=38 Identities=8% Similarity=0.160 Sum_probs=24.2
Q ss_pred ccccchhhhhHhHHHHHHHHHHHHHhhcCCcccCCCCC
Q 043708 7 PSIQKFLIVVTVVVFVGLCLVGVWMLMSSSVVPDSTNG 44 (254)
Q Consensus 7 ~s~~~y~~~~t~v~fv~lclvgvwm~~sssv~p~~~n~ 44 (254)
|+-+...-.+.+++++.+.|+++|+..+....|.+.++
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~ 42 (346)
T PRK10476 5 PKKSPRKKLPALAIVALAIVALVFVIWRTDSAPSTDDA 42 (346)
T ss_pred CCCCCcccchhHHHHHHHHHHHHHHheccCceEecCCe
Confidence 44444444555556666666777888888887775554
No 20
>COG1987 FliQ Flagellar biosynthesis pathway, component FliQ [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=37.02 E-value=28 Score=28.05 Aligned_cols=16 Identities=50% Similarity=0.956 Sum_probs=14.0
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|++|.++|=||+.
T Consensus 56 iai~~~l~~~gpWm~~ 71 (89)
T COG1987 56 IAVFLVLILLGPWMLN 71 (89)
T ss_pred HHHHHHHHHHhHHHHH
Confidence 6788999999999974
No 21
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=36.55 E-value=44 Score=22.87 Aligned_cols=21 Identities=24% Similarity=0.360 Sum_probs=14.3
Q ss_pred hhhHhHHHHHHHHHHHHHhhc
Q 043708 14 IVVTVVVFVGLCLVGVWMLMS 34 (254)
Q Consensus 14 ~~~t~v~fv~lclvgvwm~~s 34 (254)
+..|+++|+.++.+.+|.+..
T Consensus 12 ~~~~v~~~~~F~gi~~w~~~~ 32 (49)
T PF05545_consen 12 SIGTVLFFVFFIGIVIWAYRP 32 (49)
T ss_pred HHHHHHHHHHHHHHHHHHHcc
Confidence 455666677777777888754
No 22
>PF03779 SPW: SPW repeat; InterPro: IPR005530 A short repeat found in a small family of membrane-bound proteins. This repeat contains a conserved SPW motif in the first of two transmembrane helices [].
Probab=36.05 E-value=20 Score=25.54 Aligned_cols=18 Identities=28% Similarity=0.466 Sum_probs=14.4
Q ss_pred HHHHHHHHHhhcCCcccC
Q 043708 23 GLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 23 ~lclvgvwm~~sssv~p~ 40 (254)
..+++|+|++.|-|+.=-
T Consensus 4 ~~~llGlwli~SPWvlgf 21 (51)
T PF03779_consen 4 LNLLLGLWLIVSPWVLGF 21 (51)
T ss_pred HHHHHHHHHHHhHHHccc
Confidence 356889999999998733
No 23
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=34.28 E-value=41 Score=24.98 Aligned_cols=23 Identities=13% Similarity=0.271 Sum_probs=13.8
Q ss_pred hhhhHhHHHHHHHHHHHHHhhcC
Q 043708 13 LIVVTVVVFVGLCLVGVWMLMSS 35 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~~ss 35 (254)
+..+.+++|+++.+||+|-|.+.
T Consensus 11 ~f~~~~~l~~~~~~~~~~~l~~~ 33 (181)
T PF12729_consen 11 GFGLIILLLLIVGIVGLYSLSQI 33 (181)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34455556666666777766543
No 24
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=34.27 E-value=30 Score=22.30 Aligned_cols=17 Identities=35% Similarity=0.550 Sum_probs=13.7
Q ss_pred hhhhHhHHHHHHHHHHH
Q 043708 13 LIVVTVVVFVGLCLVGV 29 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgv 29 (254)
+.+..+|+|+-|.+||+
T Consensus 5 ~FalivVLFILLiIvG~ 21 (24)
T PF09680_consen 5 GFALIVVLFILLIIVGA 21 (24)
T ss_pred cchhHHHHHHHHHHhcc
Confidence 44667899999999985
No 25
>PF03929 PepSY_TM: PepSY-associated TM helix; InterPro: IPR005625 This domain represents a conserved transmembrane (TM) helix that is found in bacterial proteins. Coil residues are significantly more conserved than other residues and are frequently found within channels and transporters, where they introduce the flexibility and polarity required for transport across the membrane []. This TM helix associates with PepSY (peptidase (M4) and YpeB of subtilis). PepSY is a repeated region first identified in Thermoanaerobacter tengcongensis. The PepSY domain functions in the control of M4 peptidases through their propeptide and in the germination of spores. It may also play a part in regulating protease activity [].
Probab=34.13 E-value=44 Score=21.38 Aligned_cols=21 Identities=5% Similarity=0.243 Sum_probs=17.8
Q ss_pred hhhhhHhHHHHHHHHHHHHHh
Q 043708 12 FLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 12 y~~~~t~v~fv~lclvgvwm~ 32 (254)
|...++.++++-+|+-|++|+
T Consensus 7 w~~~i~al~~lv~~iTGl~l~ 27 (27)
T PF03929_consen 7 WFGDIFALFMLVFAITGLILW 27 (27)
T ss_pred HHHHHHHHHHHHHHHHHHHhC
Confidence 777888888899999999874
No 26
>PF02950 Conotoxin: Conotoxin; InterPro: IPR004214 Cone snail toxins, conotoxins, are small neurotoxic peptides with disulphide connectivity that target ion-channels or G-protein coupled receptors. Based on the number and pattern of disulphide bonds and biological activities, conotoxins can be classified into several families []. Omega, delta and kappa families of conotoxins have a knottin or inhibitor cysteine knot scaffold. The knottin scaffold is a very special disulphide-through-disulphide knot, in which the III-VI disulphide bond crosses the macrocycle formed by two other disulphide bonds (I-IV and II-V) and the interconnecting backbone segments, where I-VI indicates the six cysteine residues starting from the N terminus. The disulphide bonding network, as well as specific amino acids in inter-cysteine loops, provide the specificity of conotoxins []. The cysteine arrangements are the same for omega, delta and kappa families, even though omega conotoxins are calcium channel blockers, whereas delta conotoxins delay the inactivation of sodium channels, and kappa conotoxins are potassium channel blockers []. Mu conotoxins have two types of cysteine arrangements, but the knottin scaffold is not observed. Mu conotoxins target the voltage-gated sodium channels [], and are useful probes for investigating voltage-dependent sodium channels of excitable tissues []. Alpha conotoxins have two types of cysteine arrangements [], and are competitive nicotinic acetylcholine receptor antagonists. ; GO: 0008200 ion channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 2EFZ_A 1FYG_A 1RMK_A 1DG0_A 1DFY_A 1DFZ_A 2JQC_A 2YYF_A 2JQB_A 1F3K_A ....
Probab=32.44 E-value=15 Score=26.20 Aligned_cols=12 Identities=33% Similarity=0.570 Sum_probs=0.0
Q ss_pred hHhHHHHHHHHH
Q 043708 16 VTVVVFVGLCLV 27 (254)
Q Consensus 16 ~t~v~fv~lclv 27 (254)
.|+|+||||.|+
T Consensus 3 Lt~vliVavLll 14 (75)
T PF02950_consen 3 LTCVLIVAVLLL 14 (75)
T ss_dssp ------------
T ss_pred cchHHHHHHHHH
Confidence 478888888765
No 27
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=32.41 E-value=40 Score=25.98 Aligned_cols=18 Identities=22% Similarity=0.340 Sum_probs=10.7
Q ss_pred hhHhHHHHHHHHHHHHHh
Q 043708 15 VVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 15 ~~t~v~fv~lclvgvwm~ 32 (254)
++.+.++.||.||+||.+
T Consensus 44 ~~~~~li~aLi~v~vvL~ 61 (64)
T COG4068 44 MILMFLILALILVMVVLP 61 (64)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 344555566667777654
No 28
>COG3115 ZipA Cell division protein [Cell division and chromosome partitioning]
Probab=31.43 E-value=33 Score=33.14 Aligned_cols=20 Identities=30% Similarity=0.776 Sum_probs=17.3
Q ss_pred hhhhhHhHHHHHHHHHHHHH
Q 043708 12 FLIVVTVVVFVGLCLVGVWM 31 (254)
Q Consensus 12 y~~~~t~v~fv~lclvgvwm 31 (254)
.++.|.++++|||.+.|.|-
T Consensus 7 ILIIvG~IAIiaLLvhGlWt 26 (324)
T COG3115 7 ILIIVGAIAIIALLVHGLWT 26 (324)
T ss_pred HHHHHHHHHHHHHHHhhhhh
Confidence 46778889999999999994
No 29
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=31.22 E-value=29 Score=28.78 Aligned_cols=28 Identities=18% Similarity=0.007 Sum_probs=19.6
Q ss_pred chhhhhHhHHHHHHHHHHHHHhhcCCcc
Q 043708 11 KFLIVVTVVVFVGLCLVGVWMLMSSSVV 38 (254)
Q Consensus 11 ~y~~~~t~v~fv~lclvgvwm~~sssv~ 38 (254)
..++++.|++||++.+++|..+..+-..
T Consensus 77 ~~~iivgvi~~Vi~Iv~~Iv~~~Cc~c~ 104 (179)
T PF13908_consen 77 ITGIIVGVICGVIAIVVLIVCFCCCCCC 104 (179)
T ss_pred eeeeeeehhhHHHHHHHhHhhheecccc
Confidence 4567777777888878777777765443
No 30
>PF11807 DUF3328: Domain of unknown function (DUF3328); InterPro: IPR021765 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes.
Probab=30.59 E-value=77 Score=25.11 Aligned_cols=23 Identities=17% Similarity=0.450 Sum_probs=9.9
Q ss_pred cchhhhhHhHHHHHHHHHHHHHh
Q 043708 10 QKFLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 10 ~~y~~~~t~v~fv~lclvgvwm~ 32 (254)
..+++.+++++++.|.++-+|.+
T Consensus 11 ~~~~~~~~~~l~~~l~~~~~~~~ 33 (217)
T PF11807_consen 11 RRLLLLFLLLLILSLLLLVLAVL 33 (217)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444444444444433333
No 31
>PRK01294 lipase chaperone; Provisional
Probab=30.28 E-value=59 Score=30.61 Aligned_cols=20 Identities=10% Similarity=0.223 Sum_probs=13.0
Q ss_pred hhhHhHHHHHHHHHHHHHhh
Q 043708 14 IVVTVVVFVGLCLVGVWMLM 33 (254)
Q Consensus 14 ~~~t~v~fv~lclvgvwm~~ 33 (254)
..+++++|++.|+.|||++.
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~ 24 (336)
T PRK01294 5 RALSLGLVGLVAIGAVWLWP 24 (336)
T ss_pred hhHHHHHHHHHHHHHHHHhc
Confidence 44555666666667788876
No 32
>cd08762 Cyt_b561_CYBASC3 Vertebrate cytochrome b(561), CYBASC3 gene product. Cytochrome b ascorbate-dependent 3, as found in vertebrates, which might act as a ferric-chelate reductase, catalyzing the reduction of Fe(3+) to Fe(2+), such as associated with the transport of iron from the endosome to the cytoplasm. It is assumed that this protein uses ascorbate as the electron donor. Belongs to the cytochrome b(561) family, which are secretory vesicle-specific electron transport proteins. Cytochromes b(561) are integral membrane proteins that bind two heme groups non-covalently, and may have six alpha-helical trans-membrane segments.
Probab=29.95 E-value=46 Score=29.35 Aligned_cols=21 Identities=19% Similarity=0.368 Sum_probs=17.0
Q ss_pred hhhhHhHHHHHHHHHHHHHhh
Q 043708 13 LIVVTVVVFVGLCLVGVWMLM 33 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~~ 33 (254)
|..+.++-++++|||++||..
T Consensus 1 ~~~~~~lg~~~~~lv~~W~~~ 21 (179)
T cd08762 1 CLLLGILGIACVVLVVHWNQM 21 (179)
T ss_pred ChHHHHHHHHHHHHHHHHHHH
Confidence 345667889999999999983
No 33
>PF03839 Sec62: Translocation protein Sec62; InterPro: IPR004728 Members of the NSCC2 family have been sequenced from various yeast, fungal and animals species including Saccharomyces cerevisiae, Drosophila melanogaster and Homo sapiens. These proteins are the Sec62 proteins, believed to be associated with the Sec61 and Sec63 constituents of the general protein secretary systems of yeast microsomes. They are also the non-selective cation (NS) channels of the mammalian cytoplasmic membrane. The yeast Sec62 protein has been shown to be essential for cell growth. The mammalian NS channel proteins have been implicated in platelet derived growth factor(PGDF) dependent single channel current in fibroblasts. These channels are essentially closed in serum deprived tissue-culture cells and are specifically opened by exposure to PDGF. These channels are reported to exhibit equal selectivity for Na+, K+ and Cs+ with low permeability to Ca2+, and no permeability to anions.; GO: 0008565 protein transporter activity, 0015031 protein transport, 0016021 integral to membrane
Probab=29.64 E-value=31 Score=31.21 Aligned_cols=6 Identities=17% Similarity=0.312 Sum_probs=3.1
Q ss_pred CCcccC
Q 043708 35 SSVVPD 40 (254)
Q Consensus 35 ssv~p~ 40 (254)
-|..|-
T Consensus 177 fWlfPN 182 (224)
T PF03839_consen 177 FWLFPN 182 (224)
T ss_pred EEeCCc
Confidence 355554
No 34
>COG5353 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=29.42 E-value=44 Score=29.61 Aligned_cols=26 Identities=23% Similarity=0.468 Sum_probs=19.7
Q ss_pred hhhHhHHHHHHHHHHHHHhhcCCcccC
Q 043708 14 IVVTVVVFVGLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 14 ~~~t~v~fv~lclvgvwm~~sssv~p~ 40 (254)
+.|.+|+|+|+.|+++-|+.++ ..|-
T Consensus 9 i~ii~viflai~~s~~~~~~~s-~~P~ 34 (161)
T COG5353 9 IIIILVIFLAIILSIALFFWKS-MKPY 34 (161)
T ss_pred ehhHHHHHHHHHHHHHHHHhHh-cCcc
Confidence 4556699999999999988765 4454
No 35
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=28.99 E-value=78 Score=28.60 Aligned_cols=58 Identities=21% Similarity=0.229 Sum_probs=26.2
Q ss_pred cCCCcccccccch---hhhhhhccc---CCCCCCccceeEeccCCCCCCccccc---CCCCCCCCCCC
Q 043708 156 QNGAWSTQPIESQ---NETISQQSS---IFKDQYGHRWKIWRYCPEEACTSIAP---LPEGYKRSIKW 214 (254)
Q Consensus 156 qngs~sTQa~ES~---~Ek~~q~~~---~~~~~~~y~WkLcRHCPee~~~CLVP---pP~GYK~PIrW 214 (254)
|.|...+.-.... +|+.+.-+. +..+ .-.-|.+-+--+...-.--|. -+..||+=|.|
T Consensus 137 Q~g~h~~~y~~~S~DW~Em~~Ais~atgi~~~-~mi~w~ign~G~~~~a~gtVs~k~~~~~YrV~i~W 203 (217)
T PF07423_consen 137 QTGEHVMTYDSGSVDWNEMLKAISYATGISED-NMIVWFIGNNGSPQKAIGTVSDKDTGKKYRVYIEW 203 (217)
T ss_pred cCCCccccccCCCcCHHHHHHHHHHhhCCChh-heEEEhhhcCCcccceeEEeccCCCCceEEEEEEE
Confidence 5566555554443 444433331 2222 235677776554111111122 23457777766
No 36
>PRK10299 PhoPQ regulatory protein; Provisional
Probab=28.51 E-value=57 Score=23.90 Aligned_cols=20 Identities=35% Similarity=0.654 Sum_probs=14.1
Q ss_pred hHhHHHHHHHHHHHHHhhcCC
Q 043708 16 VTVVVFVGLCLVGVWMLMSSS 36 (254)
Q Consensus 16 ~t~v~fv~lclvgvwm~~sss 36 (254)
|.++++|+.||+ .|+++=++
T Consensus 7 iili~iv~~Cl~-lyl~ald~ 26 (47)
T PRK10299 7 VVLVVVVLACLL-LWAQVFNM 26 (47)
T ss_pred hHHHHHHHHHHH-HHHHHHHH
Confidence 445667777999 99886544
No 37
>PF14285 DUF4367: Domain of unknown function (DUF4367)
Probab=28.08 E-value=45 Score=26.07 Aligned_cols=24 Identities=13% Similarity=-0.025 Sum_probs=16.1
Q ss_pred hhhhhHhHHHHHHHHHHHHHhhcC
Q 043708 12 FLIVVTVVVFVGLCLVGVWMLMSS 35 (254)
Q Consensus 12 y~~~~t~v~fv~lclvgvwm~~ss 35 (254)
|..-+.+++.++++|++++++++.
T Consensus 1 ~~~r~a~~~~a~~i~~~~~~~t~~ 24 (168)
T PF14285_consen 1 YRKRAAVAAAAVIILVFAASMTVQ 24 (168)
T ss_pred ChHHHHHHHHHHHHHHHhHhEEeh
Confidence 444566777777777777777554
No 38
>PF11660 DUF3262: Protein of unknown function (DUF3262); InterPro: IPR021676 This entry represents small, hydrophobic proteins that are found occasionally on plasmids such as the Pseudomonas putida TOL (toluene catabolic) plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=27.30 E-value=61 Score=24.53 Aligned_cols=25 Identities=24% Similarity=0.387 Sum_probs=19.8
Q ss_pred hhhHhHHHHHHHHHHHHHhhcCCcc
Q 043708 14 IVVTVVVFVGLCLVGVWMLMSSSVV 38 (254)
Q Consensus 14 ~~~t~v~fv~lclvgvwm~~sssv~ 38 (254)
.++..++++.|.|.++|.+.+....
T Consensus 22 ~li~g~~~avllLW~aWa~~~~y~G 46 (76)
T PF11660_consen 22 LLILGILFAVLLLWAAWALWSAYRG 46 (76)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566778888999999999887654
No 39
>PF13665 DUF4150: Domain of unknown function (DUF4150)
Probab=26.45 E-value=33 Score=27.69 Aligned_cols=17 Identities=18% Similarity=0.223 Sum_probs=14.2
Q ss_pred CcccccCCCCCCCCCCCCC
Q 043708 198 CTSIAPLPEGYKRSIKWPK 216 (254)
Q Consensus 198 ~~CLVPpP~GYK~PIrWPk 216 (254)
--||.|+|+. +||+.|-
T Consensus 10 DVC~TP~~~~--vPIPYpn 26 (110)
T PF13665_consen 10 DVCKTPPGPP--VPIPYPN 26 (110)
T ss_pred cceeCCCCCC--ccCcccc
Confidence 3599999877 9999884
No 40
>TIGR01732 tiny_TM_bacill conserved hypothetical tiny transmembrane protein. This model represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=25.68 E-value=53 Score=21.54 Aligned_cols=16 Identities=38% Similarity=0.698 Sum_probs=12.6
Q ss_pred hhhHhHHHHHHHHHHH
Q 043708 14 IVVTVVVFVGLCLVGV 29 (254)
Q Consensus 14 ~~~t~v~fv~lclvgv 29 (254)
.++.+|+|+-|.++|+
T Consensus 8 f~livVLFILLIIiga 23 (26)
T TIGR01732 8 FALIVVLFILLVIVGA 23 (26)
T ss_pred hHHHHHHHHHHHHhhe
Confidence 3566889999999885
No 41
>PF01313 Bac_export_3: Bacterial export proteins, family 3; InterPro: IPR002191 The fliL operon of Escherichia coli contains seven genes (including fliO, fliP, fliQ and fliR) involved in the biosynthesis and functioning of the flagellar organelle []. The fliO, fliP, fliQ and fliR genes encode highly hydrophobic polypeptides. The fliQ gene product, a small integral membrane protein that contains two putative transmembrane (TM) regions, is required for the assembly of the rivet at the earliest stage of flagellar biosynthesis. Proteins sharing an evolutionary relationship with FliQ have been found in a range of bacteria: these include Yop translocation protein S from Yersinia pestis []; surface antigen-presentation protein SpaQ from Salmonella typhimurium and Shigella flexneri []; and probable translocation protein Y4YM from Rhizobium sp. (strain NGR234) []. All of these members export proteins, that do not possess signal peptides, through the membrane. Although the proteins that these exporters move may be different, the exporters are thought to function in similar ways [].; GO: 0009306 protein secretion, 0016020 membrane
Probab=25.60 E-value=63 Score=24.93 Aligned_cols=16 Identities=50% Similarity=0.910 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
++++++|.+.|-||+.
T Consensus 53 ~av~~~l~~~g~wm~~ 68 (76)
T PF01313_consen 53 LAVFLVLLLFGPWMLQ 68 (76)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678899999999975
No 42
>PRK14859 tatA twin arginine translocase protein A; Provisional
Probab=25.33 E-value=43 Score=25.16 Aligned_cols=14 Identities=21% Similarity=0.498 Sum_probs=10.6
Q ss_pred hHhHHHHHHHHHHH
Q 043708 16 VTVVVFVGLCLVGV 29 (254)
Q Consensus 16 ~t~v~fv~lclvgv 29 (254)
+.|+++|+|.|||.
T Consensus 9 lliIlvv~LlvfGp 22 (63)
T PRK14859 9 LIVILVIVLIVFGA 22 (63)
T ss_pred HHHHHHHHHHHhCc
Confidence 56778888888874
No 43
>PRK03625 tatE twin arginine translocase protein E; Validated
Probab=24.92 E-value=41 Score=25.56 Aligned_cols=14 Identities=29% Similarity=0.349 Sum_probs=10.8
Q ss_pred hHhHHHHHHHHHHH
Q 043708 16 VTVVVFVGLCLVGV 29 (254)
Q Consensus 16 ~t~v~fv~lclvgv 29 (254)
+.||++|+|.|||.
T Consensus 9 lliIlvI~lllFGp 22 (67)
T PRK03625 9 LLVVAALVVLLFGT 22 (67)
T ss_pred HHHHHHHHHHHcCc
Confidence 56778888888884
No 44
>PRK06010 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=24.87 E-value=64 Score=25.60 Aligned_cols=16 Identities=38% Similarity=0.397 Sum_probs=13.6
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
++++++|.+.|-||+.
T Consensus 56 iav~~~l~~~g~Wm~~ 71 (88)
T PRK06010 56 VAIFVTLLLTLPFMGA 71 (88)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999985
No 45
>KOG2927 consensus Membrane component of ER protein translocation complex [Intracellular trafficking, secretion, and vesicular transport]
Probab=24.42 E-value=73 Score=31.39 Aligned_cols=39 Identities=28% Similarity=0.495 Sum_probs=26.0
Q ss_pred hHhHHHHHHHHHHH-HHhhc----CCcccCCCCCCCCCcccccccccc
Q 043708 16 VTVVVFVGLCLVGV-WMLMS----SSVVPDSTNGDGDDVPVEKSENRV 58 (254)
Q Consensus 16 ~t~v~fv~lclvgv-wm~~s----ssv~p~~~n~~~~dv~~~ks~~~~ 58 (254)
|.+++||=|.|||+ |.++- -|+.|-- +.||-+-+|=++.
T Consensus 232 IlvLaIvRlILF~I~~il~~g~~g~W~FPNL----~eDvGfleSF~PL 275 (372)
T KOG2927|consen 232 ILVLAIVRLILFGITWILTGGKHGFWLFPNL----TEDVGFLESFKPL 275 (372)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCCceEeccch----hhhhhHHHhhccc
Confidence 66677787888875 77765 5777753 4566666665543
No 46
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=24.36 E-value=1.1e+02 Score=18.77 Aligned_cols=27 Identities=15% Similarity=0.082 Sum_probs=11.2
Q ss_pred CccccchhhhhHhHHHHHHHHHHHHHh
Q 043708 6 MPSIQKFLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 6 ~~s~~~y~~~~t~v~fv~lclvgvwm~ 32 (254)
+|.|-.-.....+++-++|.++++|++
T Consensus 2 LP~TG~~~~~~~~~~G~~l~~~~~~~~ 28 (34)
T TIGR01167 2 LPKTGESGNSLLLLLGLLLLGLGGLLL 28 (34)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHHHHh
Confidence 465553222233333334444455554
No 47
>PF10749 DUF2534: Protein of unknown function (DUF2534); InterPro: IPR019685 This entry represents proteins with unknown function, and appear to be restricted to Enterobacteriaceae.
Probab=24.12 E-value=53 Score=26.53 Aligned_cols=29 Identities=21% Similarity=0.448 Sum_probs=23.2
Q ss_pred ccCccccchhhhhHhHHHHHHHHHHHHHh
Q 043708 4 MRMPSIQKFLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 4 ~~~~s~~~y~~~~t~v~fv~lclvgvwm~ 32 (254)
.+-+.-.+|+..+.+|.++|+|+||==|+
T Consensus 7 lk~~~~kkFl~~l~~vfiia~~Vv~rAt~ 35 (85)
T PF10749_consen 7 LKTKEGKKFLLALAIVFIIAATVVGRATI 35 (85)
T ss_pred hcChhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 34456678999999999999999986554
No 48
>TIGR01403 fliQ_rel_III type III secretion protein, HrpO family. This model represents one of several families of proteins related to bacterial flagellar biosynthesis proteins and involved in bacterial type III protein secretion systems. This family is homologous to, but distinguished from, flagellar biosynthetic protein FliQ. This model may not identify all type III secretion system FliQ homologs.
Probab=24.08 E-value=67 Score=25.10 Aligned_cols=16 Identities=31% Similarity=0.663 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|++|.+.|-||+.
T Consensus 52 iav~~~l~~~~pwm~~ 67 (81)
T TIGR01403 52 IAVFITLMLTAGWLGA 67 (81)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999975
No 49
>PF02416 MttA_Hcf106: mttA/Hcf106 family; InterPro: IPR003369 Members of this protein family are involved in a sec-independent translocation mechanism. This pathway has been called the DeltapH pathway in chloroplasts []. Members of this family in Escherichia coli are involved in export of redox proteins with a "twin arginine" leader motif (S/T-R-R-X-F-L-K) []. This sec-independent pathway is termed TAT for twin-arginine translocation system. This system mainly transports proteins with bound cofactors that require folding prior to export.; GO: 0008565 protein transporter activity, 0015031 protein transport; PDB: 2L16_A.
Probab=24.01 E-value=48 Score=23.56 Aligned_cols=13 Identities=31% Similarity=0.659 Sum_probs=8.9
Q ss_pred hHhHHHHHHHHHH
Q 043708 16 VTVVVFVGLCLVG 28 (254)
Q Consensus 16 ~t~v~fv~lclvg 28 (254)
+.++++|+|.|||
T Consensus 6 l~iI~vvalllfG 18 (53)
T PF02416_consen 6 LLIILVVALLLFG 18 (53)
T ss_dssp HHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHhC
Confidence 4567778888887
No 50
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=23.67 E-value=92 Score=20.53 Aligned_cols=24 Identities=17% Similarity=0.383 Sum_probs=18.9
Q ss_pred cchhhhhHhHHHHHHHHHHHHHhh
Q 043708 10 QKFLIVVTVVVFVGLCLVGVWMLM 33 (254)
Q Consensus 10 ~~y~~~~t~v~fv~lclvgvwm~~ 33 (254)
-.++..++-++++..|+-|+.|+.
T Consensus 8 H~W~Gl~~g~~l~~~~~tG~~~~f 31 (37)
T PF13706_consen 8 HRWLGLILGLLLFVIFLTGAVMVF 31 (37)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHH
Confidence 356677788888889999998864
No 51
>PF03866 HAP: Hydrophobic abundant protein (HAP) ; InterPro: IPR005566 Expression of Hydrophobic Abundant protein is thought to be developmentally regulated and possibly involved in spherule cell wall formation [].
Probab=23.38 E-value=59 Score=28.70 Aligned_cols=15 Identities=53% Similarity=0.873 Sum_probs=12.8
Q ss_pred HHHHHHHHHHHHhhc
Q 043708 20 VFVGLCLVGVWMLMS 34 (254)
Q Consensus 20 ~fv~lclvgvwm~~s 34 (254)
+|||||++.+--+.+
T Consensus 5 vfvalc~~avvalat 19 (164)
T PF03866_consen 5 VFVALCLFAVVALAT 19 (164)
T ss_pred HHHHHHHHHHHHHhh
Confidence 799999999987655
No 52
>PRK05700 fliQ flagellar biosynthesis protein FliQ; Validated
Probab=23.10 E-value=70 Score=25.33 Aligned_cols=16 Identities=38% Similarity=0.810 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|++|.+.|-||+.
T Consensus 56 iav~~~l~~~g~Wm~~ 71 (89)
T PRK05700 56 LAVLLTLIIAGPWMLN 71 (89)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999975
No 53
>PRK02958 tatA twin arginine translocase protein A; Provisional
Probab=22.89 E-value=52 Score=25.49 Aligned_cols=14 Identities=14% Similarity=0.313 Sum_probs=10.2
Q ss_pred hHhHHHHHHHHHHH
Q 043708 16 VTVVVFVGLCLVGV 29 (254)
Q Consensus 16 ~t~v~fv~lclvgv 29 (254)
+.||++|+|.|||.
T Consensus 9 lliIl~IvlllFG~ 22 (73)
T PRK02958 9 WLIVLVIVVLVFGT 22 (73)
T ss_pred HHHHHHHHHHHhCc
Confidence 45677788888883
No 54
>PF14030 DUF4245: Protein of unknown function (DUF4245)
Probab=22.67 E-value=1.1e+02 Score=25.88 Aligned_cols=21 Identities=14% Similarity=0.200 Sum_probs=15.7
Q ss_pred hhhhHhHHHHHHHHHHHHHhh
Q 043708 13 LIVVTVVVFVGLCLVGVWMLM 33 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~~ 33 (254)
-.+++|+++|++|++=+++++
T Consensus 8 dMilSL~vl~~~~~~i~~~~~ 28 (169)
T PF14030_consen 8 DMILSLAVLVAIVALIVAGVT 28 (169)
T ss_pred HHHHHHHHHHHHHHHHHHhhc
Confidence 356778888888888767765
No 55
>TIGR01402 fliQ flagellar biosynthetic protein FliQ. This model describes FliQ, a protein involved in biosynthesis of bacterial flagella. A related family of proteins, excluded from this model, participates in bacterial type III protein secretion systems.
Probab=22.46 E-value=73 Score=25.22 Aligned_cols=16 Identities=38% Similarity=0.991 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|++|.+.|-||+.
T Consensus 56 iav~~~l~~~gpWm~~ 71 (88)
T TIGR01402 56 IAILLALALLGPWMLT 71 (88)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999974
No 56
>PF08733 PalH: PalH/RIM21; InterPro: IPR014844 PalH (also known as RIM21) is a transmembrane protein required for proteolytic cleavage of Rim101/PacC transcription factors which are activated by C-terminal proteolytic processing. Rim101/PacC family proteins play a key role in pH-dependent responses and PalH has been implicated as a pH sensor [].
Probab=22.09 E-value=76 Score=29.84 Aligned_cols=27 Identities=19% Similarity=0.349 Sum_probs=20.1
Q ss_pred hhhhhHhHHHHHHHHHHHHHhhcCCcc
Q 043708 12 FLIVVTVVVFVGLCLVGVWMLMSSSVV 38 (254)
Q Consensus 12 y~~~~t~v~fv~lclvgvwm~~sssv~ 38 (254)
|.+++.++.-++-..|+.|||+=-...
T Consensus 80 ~~s~~~i~y~~s~~~V~~wmL~lll~l 106 (348)
T PF08733_consen 80 YYSIVPILYSISASCVITWMLTLLLFL 106 (348)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456666666677788999999866665
No 57
>PRK12785 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=22.06 E-value=26 Score=29.50 Aligned_cols=19 Identities=16% Similarity=0.020 Sum_probs=11.9
Q ss_pred HhHHHHHHHHHHHHHhhcC
Q 043708 17 TVVVFVGLCLVGVWMLMSS 35 (254)
Q Consensus 17 t~v~fv~lclvgvwm~~ss 35 (254)
.+|+.++.|..|+|||+..
T Consensus 31 ~~~lll~~~g~g~~f~~~~ 49 (166)
T PRK12785 31 AAAVLLLGGGGGGFFFFFS 49 (166)
T ss_pred HHHHHHHhcchheEEEEEe
Confidence 3344444455789998865
No 58
>PRK15350 type III secretion system protein SsaS; Provisional
Probab=21.72 E-value=80 Score=25.05 Aligned_cols=16 Identities=13% Similarity=0.297 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|+.|.+.|-||+.
T Consensus 56 iav~~~l~~~gpWm~~ 71 (88)
T PRK15350 56 LAIAITLMVSYPWLSG 71 (88)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999975
No 59
>TIGR02832 spo_yunB sporulation protein YunB. A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. Mutation of this sigma E-regulated gene, designated yunB, has been shown to cause a sporulation defect.
Probab=21.65 E-value=78 Score=28.14 Aligned_cols=29 Identities=21% Similarity=0.616 Sum_probs=22.6
Q ss_pred chhhhhHhHHHHHHHHHHHHHhhcCCcccC
Q 043708 11 KFLIVVTVVVFVGLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 11 ~y~~~~t~v~fv~lclvgvwm~~sssv~p~ 40 (254)
.|-..+++++|+.+.+.++|++ -..+-|+
T Consensus 4 R~~~l~~~i~~~~~~~~~~~~~-~~~i~P~ 32 (204)
T TIGR02832 4 RRILLISLILFILLLLQFLWIV-DSLIKPT 32 (204)
T ss_pred eehHHHHHHHHHHHHHHHHHhh-hhccchH
Confidence 4667889999999999999976 4455555
No 60
>PF14998 Ripply: Transcription Regulator
Probab=21.47 E-value=39 Score=27.20 Aligned_cols=17 Identities=29% Similarity=0.776 Sum_probs=13.6
Q ss_pred cCCCCCCCCCC--CCCccc
Q 043708 203 PLPEGYKRSIK--WPKSRD 219 (254)
Q Consensus 203 PpP~GYK~PIr--WPkSRD 219 (254)
..+.+|+-||| ||+||-
T Consensus 35 ~~~~~FqHPVRL~wPkSk~ 53 (87)
T PF14998_consen 35 KGLSGFQHPVRLYWPKSKC 53 (87)
T ss_pred CcccccCCceEeeccchHH
Confidence 34568999988 999974
No 61
>PF10601 zf-LITAF-like: LITAF-like zinc ribbon domain; InterPro: IPR006629 Members of this family display a conserved zinc ribbon structure [] with the motif C-XX-C- separated from the more C-terminal HX-C(P)X-C-X4-G-R motif by a variable region of usually 25-30 (hydrophobic) residues. Although it belongs to one of the zinc finger's fold groups (zinc ribbon), this particular domain was first identified in LPS-induced tumour necrosis alpha factor (LITAF) which is produced in mammalian cells after being challenged with lipopolysaccharide (LPS). The hydrophobic region probably inserts into the membrane rather than traversing it. Such an insertion brings together the N- and C-terminal C-XX-C motifs to form a compact Zn2+-binding structure [].
Probab=21.38 E-value=66 Score=23.29 Aligned_cols=24 Identities=25% Similarity=0.401 Sum_probs=16.7
Q ss_pred ccchhhhhHhHHHHHHHHHHHHHh
Q 043708 9 IQKFLIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 9 ~~~y~~~~t~v~fv~lclvgvwm~ 32 (254)
+.......|.++.+.|||+|.|-+
T Consensus 21 v~~~~g~~t~~~~~~l~~~~~~~~ 44 (73)
T PF10601_consen 21 VEYKSGTMTYICAALLCLFGCWPC 44 (73)
T ss_pred EEEEeChHHHHHHHHHHHHHHHHH
Confidence 344455667777788888888764
No 62
>PRK12781 fliQ flagellar biosynthesis protein FliQ; Reviewed
Probab=21.21 E-value=83 Score=24.97 Aligned_cols=16 Identities=19% Similarity=0.470 Sum_probs=13.4
Q ss_pred hHHHHHHHHHHHHHhh
Q 043708 18 VVVFVGLCLVGVWMLM 33 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~ 33 (254)
+++|+.|.+.|-||+.
T Consensus 56 iav~~~l~~~~~wm~~ 71 (88)
T PRK12781 56 VVILIVMAVTGSFVGA 71 (88)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 5678889999999975
No 63
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=21.06 E-value=39 Score=26.54 Aligned_cols=20 Identities=40% Similarity=0.602 Sum_probs=11.2
Q ss_pred hhhHhHHHH-HHHHHHHHHhh
Q 043708 14 IVVTVVVFV-GLCLVGVWMLM 33 (254)
Q Consensus 14 ~~~t~v~fv-~lclvgvwm~~ 33 (254)
++|.+|++| +|..|.+|.|.
T Consensus 71 i~vg~~~~v~~lv~~l~w~f~ 91 (96)
T PTZ00382 71 ISVAVVAVVGGLVGFLCWWFV 91 (96)
T ss_pred EEeehhhHHHHHHHHHhheeE
Confidence 345444444 55667778763
No 64
>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=21.01 E-value=50 Score=30.79 Aligned_cols=20 Identities=30% Similarity=0.707 Sum_probs=16.9
Q ss_pred hhhhHhHHHHHHHHHHHHHh
Q 043708 13 LIVVTVVVFVGLCLVGVWML 32 (254)
Q Consensus 13 ~~~~t~v~fv~lclvgvwm~ 32 (254)
+++|.+++++||.+-|.|-+
T Consensus 6 LIIvGaiaI~aLl~hGlwt~ 25 (284)
T TIGR02205 6 LIIVGILAIAALLFHGLWTS 25 (284)
T ss_pred HHHHHHHHHHHHHHcccccc
Confidence 57788889999999999953
No 65
>PRK10549 signal transduction histidine-protein kinase BaeS; Provisional
Probab=20.87 E-value=77 Score=28.06 Aligned_cols=15 Identities=20% Similarity=0.343 Sum_probs=8.8
Q ss_pred CccccCccccchhhh
Q 043708 1 MRLMRMPSIQKFLIV 15 (254)
Q Consensus 1 ~~~~~~~s~~~y~~~ 15 (254)
|++|||.-..+-.+.
T Consensus 1 m~~~~~si~~kl~~~ 15 (466)
T PRK10549 1 MKFWRPGITGKLFLA 15 (466)
T ss_pred CchhhhhHHHHHHHH
Confidence 667776655554443
No 66
>PF03954 Lectin_N: Hepatic lectin, N-terminal domain; InterPro: IPR005640 Animal lectins display a wide variety of architectures. They are classified according to the carbohydrate-recognition domain (CRD) of which there are two main types, S-type and C-type. C-type lectins display a wide range of specificities. They require Ca2+ for their activity They are found predominantly but not exclusively in vertebrates. This entry presents N-terminal domain, which is found in C-type lectins.; GO: 0005529 sugar binding, 0016020 membrane
Probab=20.79 E-value=52 Score=28.37 Aligned_cols=15 Identities=20% Similarity=0.802 Sum_probs=8.2
Q ss_pred hhhHhHHHHHHHHHH
Q 043708 14 IVVTVVVFVGLCLVG 28 (254)
Q Consensus 14 ~~~t~v~fv~lclvg 28 (254)
+.+.+.+.|++|++|
T Consensus 40 Lgl~~LLLV~IcVig 54 (138)
T PF03954_consen 40 LGLSLLLLVVICVIG 54 (138)
T ss_pred HHHHHHHHHHHHhhc
Confidence 344455556666665
No 67
>PF02532 PsbI: Photosystem II reaction centre I protein (PSII 4.8 kDa protein); InterPro: IPR003686 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 []. This family represents the low molecular weight transmembrane protein PsbI, which is tightly associated with the D1/D2 heterodimer in PSII. The function of PsbI is unknown, but it may be involved in the assembly, dimerisation or stabilisation of PSII dimers [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_i 3ARC_I 3A0B_i 3BZ2_I 3PRQ_I 3KZI_I 3PRR_I 2AXT_i 4FBY_I 1S5L_i ....
Probab=20.62 E-value=80 Score=22.06 Aligned_cols=15 Identities=33% Similarity=0.647 Sum_probs=10.2
Q ss_pred hhHhHHHHHHHHHHH
Q 043708 15 VVTVVVFVGLCLVGV 29 (254)
Q Consensus 15 ~~t~v~fv~lclvgv 29 (254)
.+.|..||+|.++|.
T Consensus 9 y~vV~ffv~LFifGf 23 (36)
T PF02532_consen 9 YTVVIFFVSLFIFGF 23 (36)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred hhhHHHHHHHHhccc
Confidence 345566788888884
No 68
>PF12012 DUF3504: Domain of unknown function (DUF3504); InterPro: IPR021893 This presumed domain is functionally uncharacterised. This domain is found in eukaryotes. This domain is typically between 156 to 173 amino acids in length.
Probab=20.35 E-value=65 Score=26.65 Aligned_cols=33 Identities=18% Similarity=0.140 Sum_probs=21.3
Q ss_pred CcccccCCCCCCCCCCCCCccccccccCCCCcc
Q 043708 198 CTSIAPLPEGYKRSIKWPKSRDRIWYYNFPHTK 230 (254)
Q Consensus 198 ~~CLVPpP~GYK~PIrWPkSRDkIWy~NVPHTk 230 (254)
+.|.-+...=|..|.+=-.-.+.+||.++|..+
T Consensus 127 ~~~~~~~~~FYl~P~~~~~~~~~~WY~~~PlG~ 159 (172)
T PF12012_consen 127 PSVRPRSDPFYLRPERSCSPDSPPWYSSQPLGK 159 (172)
T ss_pred hhhccCCCCeEeCccCccCCCCCCCeeccccCH
Confidence 445555556677776531224689999999765
No 69
>TIGR03745 conj_TIGR03745 integrating conjugative element membrane protein, PFL_4702 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=20.18 E-value=79 Score=26.21 Aligned_cols=21 Identities=38% Similarity=0.518 Sum_probs=15.7
Q ss_pred hHhHHHHHHHHHHHHHhhcCC
Q 043708 16 VTVVVFVGLCLVGVWMLMSSS 36 (254)
Q Consensus 16 ~t~v~fv~lclvgvwm~~sss 36 (254)
.++++=|.|.++++|+++=++
T Consensus 81 ~~v~VGviLLv~vIwLltkA~ 101 (104)
T TIGR03745 81 ATVVVGAILLVVIIWLLTKAT 101 (104)
T ss_pred chhhhHhHHHHHHHHHHHHHh
Confidence 456677778889999987543
No 70
>PF02340 PRRSV_Env: PRRSV putative envelope protein; InterPro: IPR003434 This family consists of a conserved probable envelope protein or ORF2 in Porcine reproductive and respiratory syndrome virus (PRRSV) also in the family is a minor structural protein from lactate dehydrogenase-elevating virus.
Probab=20.11 E-value=56 Score=30.35 Aligned_cols=36 Identities=31% Similarity=0.540 Sum_probs=32.4
Q ss_pred CccccchhhhhHhHHHHHHHH-----HHHHHhhcCCcccCC
Q 043708 6 MPSIQKFLIVVTVVVFVGLCL-----VGVWMLMSSSVVPDS 41 (254)
Q Consensus 6 ~~s~~~y~~~~t~v~fv~lcl-----vgvwm~~sssv~p~~ 41 (254)
||+.+..|--.+.-.|...|| +|-|.+.|-|.+|-.
T Consensus 1 m~~~s~l~p~li~~~~~~fcl~~psp~g~w~~~sdwfapr~ 41 (234)
T PF02340_consen 1 MPSRSSLCPWLISSFFWPFCLASPSPVGCWSFFSDWFAPRY 41 (234)
T ss_pred CcchhhHHHHHHHHHHHHHHhCCCCCCceehhhhhhcCccc
Confidence 788888888888899999999 799999999999974
No 71
>TIGR02830 spore_III_AG stage III sporulation protein AG. CC A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is found in a spore formation operon and is designated stage III sporulation protein AG.
Probab=20.01 E-value=1.5e+02 Score=26.19 Aligned_cols=23 Identities=26% Similarity=0.469 Sum_probs=13.9
Q ss_pred hHHHHHHHHHHHHHhhcCCcccC
Q 043708 18 VVVFVGLCLVGVWMLMSSSVVPD 40 (254)
Q Consensus 18 ~v~fv~lclvgvwm~~sssv~p~ 40 (254)
+-.++.|+|+|+-+|..++..+.
T Consensus 3 ~~~l~il~l~GvlLli~s~~f~~ 25 (186)
T TIGR02830 3 LTYLLVLLLIGLLLLIVSSFFSS 25 (186)
T ss_pred hHHHHHHHHHHHHHHHhhccccC
Confidence 34456666777776665555443
Done!