Query 045567
Match_columns 74
No_of_seqs 18 out of 20
Neff 2.2
Searched_HMMs 46136
Date Fri Mar 29 03:22:59 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/045567.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/045567hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG5522 Predicted integral mem 91.3 0.24 5.2E-06 38.3 3.3 44 14-57 144-196 (236)
2 PRK09400 secE preprotein trans 88.6 0.32 6.9E-06 30.0 1.7 18 26-43 36-53 (61)
3 TIGR00327 secE_euk_arch protei 87.6 0.4 8.7E-06 29.8 1.7 18 26-43 32-49 (61)
4 PTZ00478 Sec superfamily; Prov 81.2 1.1 2.5E-05 29.5 1.8 17 27-43 50-66 (81)
5 TIGR01167 LPXTG_anchor LPXTG-m 74.8 3.3 7.1E-05 21.3 2.1 23 26-48 11-33 (34)
6 COG2443 Sss1 Preprotein transl 73.9 2.7 5.9E-05 26.8 1.9 18 26-43 37-54 (65)
7 TIGR00985 3a0801s04tom mitocho 73.4 2.3 4.9E-05 30.2 1.6 27 23-49 4-31 (148)
8 KOG3498 Preprotein translocase 71.9 2.7 5.8E-05 27.3 1.5 15 29-43 40-54 (67)
9 PRK11677 hypothetical protein; 71.0 2.6 5.5E-05 29.4 1.4 21 26-46 3-23 (134)
10 PF00273 Serum_albumin: Serum 65.2 2 4.4E-05 29.7 -0.1 24 40-63 19-42 (178)
11 PF06295 DUF1043: Protein of u 64.3 3.1 6.8E-05 27.9 0.7 21 29-49 2-22 (128)
12 PF06522 B12D: NADH-ubiquinone 57.3 5.8 0.00013 24.5 1.0 26 28-53 10-35 (73)
13 PF04639 Baculo_E56: Baculovir 54.5 9.2 0.0002 30.6 1.9 23 22-44 276-298 (305)
14 PF12301 CD99L2: CD99 antigen 52.0 7 0.00015 28.2 0.9 20 30-49 123-142 (169)
15 PF05084 GRA6: Granule antigen 51.9 7.5 0.00016 29.7 1.0 29 15-43 6-34 (215)
16 PF01034 Syndecan: Syndecan do 51.9 4.9 0.00011 25.6 0.1 28 32-59 21-50 (64)
17 PF06686 SpoIIIAC: Stage III s 49.8 7.3 0.00016 22.7 0.6 25 29-53 4-28 (58)
18 PF02064 MAS20: MAS20 protein 49.0 5.7 0.00012 27.2 0.0 20 30-49 2-21 (121)
19 PF07423 DUF1510: Protein of u 48.6 11 0.00025 28.0 1.5 27 29-55 20-47 (217)
20 KOG4056 Translocase of outer m 47.3 12 0.00025 27.2 1.4 25 27-51 11-35 (143)
21 PF07051 OCIA: Ovarian carcino 45.4 13 0.00028 25.7 1.3 17 18-34 44-60 (111)
22 PF06724 DUF1206: Domain of Un 45.3 19 0.00042 21.3 1.9 39 6-44 28-66 (73)
23 TIGR03024 arch_pef_cterm PEF-C 44.2 9.7 0.00021 20.6 0.4 17 33-49 9-25 (26)
24 PF04689 S1FA: DNA binding pro 44.1 10 0.00022 24.8 0.6 27 20-46 7-36 (69)
25 PF08693 SKG6: Transmembrane a 44.1 15 0.00034 21.4 1.3 16 34-49 23-40 (40)
26 PF12072 DUF3552: Domain of un 41.5 17 0.00037 25.6 1.5 18 28-45 5-22 (201)
27 PF09716 ETRAMP: Malarial earl 41.2 17 0.00036 23.1 1.3 20 30-49 64-83 (84)
28 PF01299 Lamp: Lysosome-associ 39.7 25 0.00055 26.0 2.2 19 27-45 278-296 (306)
29 smart00103 ALBUMIN serum album 38.5 12 0.00026 26.2 0.3 22 41-62 28-49 (187)
30 cd00015 ALBUMIN Albumin domain 38.2 12 0.00027 26.0 0.3 22 41-62 19-40 (185)
31 TIGR00943 2a6301s02 monovalent 37.8 30 0.00064 23.0 2.1 24 18-41 36-59 (107)
32 PF15110 TMEM141: TMEM141 prot 36.4 32 0.0007 23.4 2.1 28 18-45 50-77 (94)
33 TIGR00851 mtlA PTS system, man 36.2 19 0.00042 27.7 1.1 24 30-53 313-336 (338)
34 PF07589 VPEP: PEP-CTERM motif 36.2 34 0.00073 17.7 1.7 16 25-40 5-20 (25)
35 PF09604 Potass_KdpF: F subuni 36.1 18 0.00039 19.2 0.7 22 29-51 2-23 (25)
36 PF07863 CtnDOT_TraJ: Homologu 35.9 4.1 8.8E-05 26.2 -2.2 12 33-44 1-12 (68)
37 PRK13254 cytochrome c-type bio 35.1 20 0.00043 25.1 1.0 25 26-50 9-33 (148)
38 PTZ00382 Variant-specific surf 31.6 40 0.00086 21.9 1.9 14 35-48 82-95 (96)
39 PRK00733 hppA membrane-bound p 31.3 55 0.0012 28.6 3.2 23 24-46 106-128 (666)
40 PF14715 FixP_N: N-terminal do 31.0 39 0.00085 20.1 1.7 24 23-46 20-43 (51)
41 PF10177 DUF2371: Uncharacteri 30.5 15 0.00032 26.1 -0.3 25 23-49 108-132 (141)
42 TIGR02223 ftsN cell division p 30.3 78 0.0017 24.4 3.6 17 24-40 24-40 (298)
43 PRK12574 putative monovalent c 30.2 45 0.00098 23.1 2.1 23 18-40 61-83 (141)
44 PF03100 CcmE: CcmE; InterPro 29.7 18 0.00038 24.1 0.0 24 26-49 8-31 (131)
45 PRK10927 essential cell divisi 29.1 68 0.0015 25.8 3.2 31 23-53 32-63 (319)
46 PF07872 DUF1659: Protein of u 28.7 37 0.0008 19.4 1.2 17 45-61 29-45 (47)
47 PF00746 Gram_pos_anchor: Gram 28.1 20 0.00042 19.1 0.0 7 27-33 19-25 (39)
48 COG3339 Uncharacterized conser 27.3 31 0.00067 23.9 0.9 12 33-44 51-62 (116)
49 PRK07718 fliL flagellar basal 27.1 67 0.0015 21.6 2.5 13 35-47 18-30 (142)
50 PRK12509 putative monovalent c 26.9 54 0.0012 22.7 2.0 25 18-42 59-83 (137)
51 PF12732 YtxH: YtxH-like prote 26.7 54 0.0012 19.6 1.8 16 27-42 3-18 (74)
52 PF09577 Spore_YpjB: Sporulati 26.5 45 0.00098 25.1 1.7 17 26-42 201-217 (232)
53 PF07444 Ycf66_N: Ycf66 protei 25.9 58 0.0013 21.3 1.9 34 20-55 2-35 (84)
54 PRK14759 potassium-transportin 25.8 49 0.0011 18.4 1.3 23 28-51 5-27 (29)
55 KOG3300 NADH:ubiquinone oxidor 25.5 41 0.0009 24.6 1.3 31 20-50 30-60 (146)
56 PRK14748 kdpF potassium-transp 24.8 42 0.0009 18.8 0.9 22 29-51 6-27 (29)
57 PF08566 Pam17: Mitochondrial 24.6 68 0.0015 23.6 2.3 23 21-43 72-94 (173)
58 PF12729 4HB_MCP_1: Four helix 24.5 18 0.0004 21.8 -0.6 26 19-45 6-31 (181)
59 PF04612 T2SM: Type II secreti 24.4 25 0.00054 22.8 0.0 19 28-46 19-37 (160)
60 COG2332 CcmE Cytochrome c-type 24.2 46 0.001 24.3 1.3 25 26-50 9-33 (153)
61 PF09909 DUF2138: Uncharacteri 24.0 67 0.0015 27.7 2.4 40 29-68 10-49 (555)
62 PF04478 Mid2: Mid2 like cell 22.8 56 0.0012 23.8 1.5 22 29-50 57-78 (154)
63 PF14012 DUF4229: Protein of u 22.6 68 0.0015 19.7 1.7 23 22-44 29-51 (69)
64 PTZ00234 variable surface prot 22.5 48 0.001 27.0 1.2 25 24-48 362-386 (433)
65 TIGR01065 hlyIII channel prote 22.5 58 0.0013 22.8 1.5 19 34-52 157-178 (204)
66 PRK12573 putative monovalent c 22.2 77 0.0017 21.9 2.1 24 18-41 61-84 (140)
67 PF07889 DUF1664: Protein of u 22.2 63 0.0014 22.4 1.6 19 29-47 8-26 (126)
68 PRK15462 dipeptide/tripeptide 22.1 61 0.0013 26.1 1.7 29 15-45 335-363 (493)
69 TIGR01495 ETRAMP Plasmodium ri 21.7 68 0.0015 20.8 1.6 31 19-50 50-80 (85)
70 PF14387 DUF4418: Domain of un 21.6 67 0.0014 21.9 1.6 23 25-49 102-124 (124)
71 PF14155 DUF4307: Domain of un 21.6 43 0.00093 22.0 0.7 29 29-57 11-39 (112)
72 PF03896 TRAP_alpha: Transloco 21.5 81 0.0018 24.3 2.3 12 57-68 238-249 (285)
73 PF13886 DUF4203: Domain of un 21.5 67 0.0015 22.3 1.7 34 26-59 24-57 (210)
74 COG1766 fliF Flagellar basal b 21.4 74 0.0016 26.7 2.1 22 28-49 27-48 (545)
75 PF07096 DUF1358: Protein of u 21.3 40 0.00087 23.8 0.5 21 29-49 36-56 (124)
76 PF06084 Cytomega_TRL10: Cytom 21.2 64 0.0014 23.5 1.6 19 34-52 69-87 (150)
77 PF01788 PsbJ: PsbJ; InterPro 20.4 70 0.0015 19.0 1.3 17 27-43 13-29 (40)
78 PF06926 Rep_Org_C: Putative r 20.4 37 0.00081 23.3 0.2 19 34-52 40-58 (95)
79 PF15378 DUF4605: Domain of un 20.1 78 0.0017 19.9 1.6 19 30-48 42-60 (60)
No 1
>COG5522 Predicted integral membrane protein [Function unknown]
Probab=91.31 E-value=0.24 Score=38.27 Aligned_cols=44 Identities=41% Similarity=0.596 Sum_probs=39.6
Q ss_pred hhhccccCCCChhHHHHHhHHHHhhhhhhe--------eeeccCCC-cchhhh
Q 045567 14 VLHQRKSLGQCPLKMALTGFAFAGIIGYFV--------LYSKKKPE-ASALDV 57 (74)
Q Consensus 14 VLHQR~~Lp~~p~~mai~G~~i~~~igY~V--------LY~kKKPE-asA~DV 57 (74)
.+|-|-|...+-.-|++.++.+-|++.||+ ||-.|+|| +|-+||
T Consensus 144 ~vhfreRpgksgl~~svl~~~~lg~~~lfinrrLGtNYlylsk~P~~~sildv 196 (236)
T COG5522 144 IVHFRERPGKSGLVMSVLVAISLGIMCLFINRRLGTNYLYLSKEPESASILDV 196 (236)
T ss_pred HHHhccCCCccchhHHHHHHHHHHHHHHHHHHHhcCceeEeecCCCchhHHHH
Confidence 478999999999999999999999999886 99999999 567776
No 2
>PRK09400 secE preprotein translocase subunit SecE; Reviewed
Probab=88.61 E-value=0.32 Score=30.03 Aligned_cols=18 Identities=28% Similarity=0.654 Sum_probs=15.5
Q ss_pred hHHHHHhHHHHhhhhhhe
Q 045567 26 LKMALTGFAFAGIIGYFV 43 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~V 43 (74)
.+.+..|++|+|+|||++
T Consensus 36 a~~~~iG~~i~G~iGf~I 53 (61)
T PRK09400 36 AKVTGLGILLIGLIGFII 53 (61)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 356788999999999986
No 3
>TIGR00327 secE_euk_arch protein translocase SEC61 complex gamma subunit, archaeal and eukaryotic. This model describes archaeal SEC61-like and eukaryotic SEC61 but not bacterial secE proteins, for which a Pfam pfam00584 (SecE) has been created.
Probab=87.56 E-value=0.4 Score=29.81 Aligned_cols=18 Identities=39% Similarity=0.744 Sum_probs=15.5
Q ss_pred hHHHHHhHHHHhhhhhhe
Q 045567 26 LKMALTGFAFAGIIGYFV 43 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~V 43 (74)
.+.+..|++++|.|||++
T Consensus 32 ak~t~iG~~i~G~IGf~I 49 (61)
T TIGR00327 32 AKVTGIGIIIVGIIGYII 49 (61)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 356788999999999986
No 4
>PTZ00478 Sec superfamily; Provisional
Probab=81.23 E-value=1.1 Score=29.51 Aligned_cols=17 Identities=35% Similarity=0.657 Sum_probs=14.4
Q ss_pred HHHHHhHHHHhhhhhhe
Q 045567 27 KMALTGFAFAGIIGYFV 43 (74)
Q Consensus 27 ~mai~G~~i~~~igY~V 43 (74)
+....||+|.|.|||+|
T Consensus 50 kat~iGf~imG~IGy~I 66 (81)
T PTZ00478 50 YACSVGFFIMGFIGYSI 66 (81)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 44567999999999997
No 5
>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=74.77 E-value=3.3 Score=21.27 Aligned_cols=23 Identities=26% Similarity=0.371 Sum_probs=14.5
Q ss_pred hHHHHHhHHHHhhhhhheeeecc
Q 045567 26 LKMALTGFAFAGIIGYFVLYSKK 48 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~kK 48 (74)
..+.+.|+++++..+|+....||
T Consensus 11 ~~~~~~G~~l~~~~~~~~~~rk~ 33 (34)
T TIGR01167 11 SLLLLLGLLLLGLGGLLLRKRKK 33 (34)
T ss_pred HHHHHHHHHHHHHHHHHheeccc
Confidence 35677788777776665544443
No 6
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=73.85 E-value=2.7 Score=26.78 Aligned_cols=18 Identities=33% Similarity=0.693 Sum_probs=15.5
Q ss_pred hHHHHHhHHHHhhhhhhe
Q 045567 26 LKMALTGFAFAGIIGYFV 43 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~V 43 (74)
.+.+..|++++|+|||..
T Consensus 37 aKi~~~Gi~liG~IGfiI 54 (65)
T COG2443 37 AKITGLGILLIGIIGFII 54 (65)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467889999999999963
No 7
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=73.42 E-value=2.3 Score=30.24 Aligned_cols=27 Identities=22% Similarity=0.453 Sum_probs=19.9
Q ss_pred CChhHHH-HHhHHHHhhhhhheeeeccC
Q 045567 23 QCPLKMA-LTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 23 ~~p~~ma-i~G~~i~~~igY~VLY~kKK 49 (74)
+++++.+ ++|++.+++|||.|-|-.|+
T Consensus 4 ~~~~~~~~~ag~a~~~flgYciYFD~KR 31 (148)
T TIGR00985 4 SNKSNVVIAAGIAAAAFLGYAIYFDYKR 31 (148)
T ss_pred chHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 4445444 46889999999999986654
No 8
>KOG3498 consensus Preprotein translocase, gamma subunit [Intracellular trafficking, secretion, and vesicular transport]
Probab=71.91 E-value=2.7 Score=27.30 Aligned_cols=15 Identities=47% Similarity=1.032 Sum_probs=12.9
Q ss_pred HHHhHHHHhhhhhhe
Q 045567 29 ALTGFAFAGIIGYFV 43 (74)
Q Consensus 29 ai~G~~i~~~igY~V 43 (74)
...||++.|.|||+|
T Consensus 40 ~aiGf~~mG~iGf~v 54 (67)
T KOG3498|consen 40 TAIGFVIMGFIGFFV 54 (67)
T ss_pred HHHHHHHHHHHHHHH
Confidence 346999999999997
No 9
>PRK11677 hypothetical protein; Provisional
Probab=71.02 E-value=2.6 Score=29.44 Aligned_cols=21 Identities=29% Similarity=0.346 Sum_probs=18.1
Q ss_pred hHHHHHhHHHHhhhhhheeee
Q 045567 26 LKMALTGFAFAGIIGYFVLYS 46 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~ 46 (74)
...+++||+|..+|||++...
T Consensus 3 W~~a~i~livG~iiG~~~~R~ 23 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRF 23 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhh
Confidence 456889999999999999875
No 10
>PF00273 Serum_albumin: Serum albumin family; InterPro: IPR014760 A number of serum transport proteins are known to be evolutionarily related, including albumin, alpha-fetoprotein, vitamin D-binding protein and afamin [, , ]. Albumin is the main protein of plasma; it binds water, cations (such as Ca2+, Na+ and K+), fatty acids, hormones, bilirubin and drugs - its main function is to regulate the colloidal osmotic pressure of blood. Alphafeto- protein (alpha-fetoglobulin) is a foetal plasma protein that binds various cations, fatty acids and bilirubin. Vitamin D-binding protein binds to vitamin D and its metabolites, as well as to fatty acids. The biological role of afamin (alpha-albumin) has not yet been characterised. The 3D structure of human serum albumin has been determined by X-ray crystallography to a resolution of 2.8A []. It comprises three homologous domains that assemble to form a heart-shaped molecule []. Each domain is a product of two subdomains that possess common structural motifs []. The principal regions of ligand binding to human serum albumin are located in hydrophobic cavities in subdomains IIA and IIIA, which exhibit similar chemistry. Structurally, the serum albumins are similar, each domain containing five or six internal disulphide bonds, as shown schematically below: +---+ +----+ +-----+ | | | | | | xxCxxxxxxxxxxxxxxxxCCxxCxxxxCxxxxxCCxxxCxxxxxxxxxCxxxxxxxxxxxxxxCCxxxxCxxxx | | | | | | +-----------------+ +-----+ +---------------+ ; GO: 0005615 extracellular space; PDB: 3V09_A 3V03_B 3MRK_P 1MA9_A 1KW2_A 1KXP_D 1J7E_A 1J78_A 1LOT_A 2BXL_A ....
Probab=65.23 E-value=2 Score=29.70 Aligned_cols=24 Identities=33% Similarity=0.384 Sum_probs=19.7
Q ss_pred hhheeeeccCCCcchhhhhhhhhc
Q 045567 40 GYFVLYSKKKPEASALDVAKVTAG 63 (74)
Q Consensus 40 gY~VLY~kKKPEasA~DVAKVa~G 63 (74)
.++|.|++|-|.+|-.||.|++--
T Consensus 19 ~~lv~~sQk~P~asfeel~~l~~~ 42 (178)
T PF00273_consen 19 LKLVRYSQKFPQASFEELSKLVED 42 (178)
T ss_dssp HHHHHHHHHSTTS-HHHHHHHHHH
T ss_pred HHHHHHHHHccCCCHHHHHHHHHH
Confidence 367889999999999999998753
No 11
>PF06295 DUF1043: Protein of unknown function (DUF1043); InterPro: IPR009386 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=64.26 E-value=3.1 Score=27.87 Aligned_cols=21 Identities=24% Similarity=0.418 Sum_probs=16.4
Q ss_pred HHHhHHHHhhhhhheeeeccC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKK 49 (74)
+|.||+|-.+|||++....++
T Consensus 2 ~~i~lvvG~iiG~~~~r~~~~ 22 (128)
T PF06295_consen 2 AIIGLVVGLIIGFLIGRLTSS 22 (128)
T ss_pred hHHHHHHHHHHHHHHHHHhcc
Confidence 688999999999988765443
No 12
>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=57.28 E-value=5.8 Score=24.49 Aligned_cols=26 Identities=19% Similarity=0.355 Sum_probs=20.2
Q ss_pred HHHHhHHHHhhhhhheeeeccCCCcc
Q 045567 28 MALTGFAFAGIIGYFVLYSKKKPEAS 53 (74)
Q Consensus 28 mai~G~~i~~~igY~VLY~kKKPEas 53 (74)
+++.|++++++++|++=+...+||.+
T Consensus 10 ~~~vg~a~~~a~~~~~r~l~~~PdV~ 35 (73)
T PF06522_consen 10 FVIVGVAVGGATFYLYRLLLTNPDVR 35 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCCeE
Confidence 67888888888888877677777754
No 13
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=54.46 E-value=9.2 Score=30.63 Aligned_cols=23 Identities=26% Similarity=0.641 Sum_probs=20.5
Q ss_pred CCChhHHHHHhHHHHhhhhhhee
Q 045567 22 GQCPLKMALTGFAFAGIIGYFVL 44 (74)
Q Consensus 22 p~~p~~mai~G~~i~~~igY~VL 44 (74)
.+.|.-+.|||++++..||||+.
T Consensus 276 ~l~piil~IG~vl~i~~Ig~~if 298 (305)
T PF04639_consen 276 SLLPIILIIGGVLLIVFIGYFIF 298 (305)
T ss_pred hhhHHHHHHHHHHHHHHhhheee
Confidence 46788899999999999999886
No 14
>PF12301 CD99L2: CD99 antigen like protein 2; InterPro: IPR022078 This family of proteins is found in eukaryotes. Proteins in this family are typically between 165 and 237 amino acids in length. CD99L2 and CD99 are involved in trans-endothelial migration of neutrophils in vitro and in the recruitment of neutrophils into inflamed peritoneum.
Probab=52.04 E-value=7 Score=28.21 Aligned_cols=20 Identities=30% Similarity=0.536 Sum_probs=14.4
Q ss_pred HHhHHHHhhhhhheeeeccC
Q 045567 30 LTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 30 i~G~~i~~~igY~VLY~kKK 49 (74)
..+++++|++.=++-|+|||
T Consensus 123 av~valvGAvsSyiaYqkKK 142 (169)
T PF12301_consen 123 AVVVALVGAVSSYIAYQKKK 142 (169)
T ss_pred HHHHHHHHHHHHHHHHHhhc
Confidence 34556667777777899997
No 15
>PF05084 GRA6: Granule antigen protein (GRA6); InterPro: IPR008119 Toxoplasma gondii is an obligate intracellular apicomplexan protozoan parasite, with a complex lifestyle involving varied hosts []. It has two phases of growth: an intestinal phase in feline hosts, and an extra-intestinal phase in other mammals. Oocysts from infected cats develop into tachyzoites, and eventually, bradyzoites and zoitocysts in the extraintestinal host []. Transmission of the parasite occurs through contact with infected cats or raw/undercooked meat; in immunocompromised individuals, it can cause severe and often lethal toxoplasmosis. Acute infection in healthy humans can sometimes also cause tissue damage []. The protozoan utilises a variety of secretory and antigenic proteins to invade a host and gain access to the intracellular environment []. These originate from distinct organelles in the T. gondii cell termed micronemes, rhoptries, and dense granules. They are released at specific times during invasion to ensure the proteins are allocated to their correct target destinations []. Dense granule antigens (GRAs) are released from the T. gondii tachyzoite while still encapsulated in a host vacuole. Gra6, one of these moieties, is associated with the parasitophorous vacuole []. It possesses a hydrophobic central region flanked by two hydrophilic domains, and is present as a single copy gene in the Toxoplasma gondii genome []. Gra6 shares a similar function with Gra2, in that it is rapidly targeted to a network of membranous tubules that connect with the vacuolar membrane []. Indeed, these two proteins, together with Gra4, form a multimeric complex that stabilises the parasite within the vacuole.
Probab=51.93 E-value=7.5 Score=29.74 Aligned_cols=29 Identities=28% Similarity=0.605 Sum_probs=23.3
Q ss_pred hhccccCCCChhHHHHHhHHHHhhhhhhe
Q 045567 15 LHQRKSLGQCPLKMALTGFAFAGIIGYFV 43 (74)
Q Consensus 15 LHQR~~Lp~~p~~mai~G~~i~~~igY~V 43 (74)
.|-|+|--|||+|.....+.+++..|-.|
T Consensus 6 ~~~R~kR~F~PLTV~~~AV~~V~FMGV~~ 34 (215)
T PF05084_consen 6 IHLRQKRNFCPLTVSTVAVVFVVFMGVLV 34 (215)
T ss_pred hhhhhhcccCCceehhhHHHHHHhhccee
Confidence 57777788999999888888888877544
No 16
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=51.93 E-value=4.9 Score=25.61 Aligned_cols=28 Identities=43% Similarity=0.682 Sum_probs=1.6
Q ss_pred hHHHHhhhhhheeee-ccCCCcc-hhhhhh
Q 045567 32 GFAFAGIIGYFVLYS-KKKPEAS-ALDVAK 59 (74)
Q Consensus 32 G~~i~~~igY~VLY~-kKKPEas-A~DVAK 59 (74)
|+++.-.|--|++|. |||.|-| ++|=.|
T Consensus 21 gll~ailLIlf~iyR~rkkdEGSY~l~e~K 50 (64)
T PF01034_consen 21 GLLFAILLILFLIYRMRKKDEGSYDLDEPK 50 (64)
T ss_dssp ----------------S------SS--S--
T ss_pred HHHHHHHHHHHHHHHHHhcCCCCccCCCCC
Confidence 344444444555565 7777776 344444
No 17
>PF06686 SpoIIIAC: Stage III sporulation protein AC/AD protein family
Probab=49.81 E-value=7.3 Score=22.67 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=21.6
Q ss_pred HHHhHHHHhhhhhheeeeccCCCcc
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKPEAS 53 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKPEas 53 (74)
-++|+++++++-..++-..++||-+
T Consensus 4 ki~gigii~~~l~~vlk~~~~~e~a 28 (58)
T PF06686_consen 4 KIVGIGIIAAFLALVLKQAGEPEYA 28 (58)
T ss_pred HHHHHHHHHHHHHHHHHHcCChHHH
Confidence 4789999999999999988888853
No 18
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=48.97 E-value=5.7 Score=27.17 Aligned_cols=20 Identities=30% Similarity=0.650 Sum_probs=0.0
Q ss_pred HHhHHHHhhhhhheeeeccC
Q 045567 30 LTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 30 i~G~~i~~~igY~VLY~kKK 49 (74)
++|++.+++|||.|-|-.|+
T Consensus 2 ~ag~a~~~~lgYciYFD~KR 21 (121)
T PF02064_consen 2 AAGVAAAAFLGYCIYFDYKR 21 (121)
T ss_dssp --------------------
T ss_pred hHHHHHHHHHHHHhhccccc
Confidence 46888999999999876654
No 19
>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=48.62 E-value=11 Score=28.05 Aligned_cols=27 Identities=22% Similarity=0.217 Sum_probs=17.4
Q ss_pred HHHhHHHHhhhhhheee-eccCCCcchh
Q 045567 29 ALTGFAFAGIIGYFVLY-SKKKPEASAL 55 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY-~kKKPEasA~ 55 (74)
-+.-+++|.+++|++|+ ....|.+++.
T Consensus 20 I~IV~lLIiiva~~lf~~~~~~~~~~a~ 47 (217)
T PF07423_consen 20 IGIVSLLIIIVAYQLFFGGDDSPAASAD 47 (217)
T ss_pred HHHHHHHHHHHhhhheecCCCchhhhhc
Confidence 33456777888899988 5555554443
No 20
>KOG4056 consensus Translocase of outer mitochondrial membrane complex, subunit TOM20 [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.32 E-value=12 Score=27.19 Aligned_cols=25 Identities=28% Similarity=0.535 Sum_probs=19.7
Q ss_pred HHHHHhHHHHhhhhhheeeeccCCC
Q 045567 27 KMALTGFAFAGIIGYFVLYSKKKPE 51 (74)
Q Consensus 27 ~mai~G~~i~~~igY~VLY~kKKPE 51 (74)
-.-++|++.++++||.+.+-||+-.
T Consensus 11 ~vI~agiag~af~gYciYFd~KRrs 35 (143)
T KOG4056|consen 11 SVIAAGIAGLAFIGYCIYFDKKRRS 35 (143)
T ss_pred HHHHHHHHHHHHHHHHhhccccccc
Confidence 3456788888999999998888753
No 21
>PF07051 OCIA: Ovarian carcinoma immunoreactive antigen (OCIA); InterPro: IPR009764 This family consists of several ovarian carcinoma immunoreactive antigen (OCIA) and related eukaryotic sequences. The function of this family is unknown [,].
Probab=45.40 E-value=13 Score=25.67 Aligned_cols=17 Identities=24% Similarity=0.002 Sum_probs=11.4
Q ss_pred cccCCCChhHHHHHhHH
Q 045567 18 RKSLGQCPLKMALTGFA 34 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~ 34 (74)
.|.|||+-.-|++...+
T Consensus 44 yRslPls~~s~~~t~~l 60 (111)
T PF07051_consen 44 YRSLPLSAGSMLVTQGL 60 (111)
T ss_pred hccCcHHHHHHHHHHHH
Confidence 35788887777766543
No 22
>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=45.25 E-value=19 Score=21.34 Aligned_cols=39 Identities=13% Similarity=0.015 Sum_probs=30.8
Q ss_pred hhccCcchhhhccccCCCChhHHHHHhHHHHhhhhhhee
Q 045567 6 QAAQHSTEVLHQRKSLGQCPLKMALTGFAFAGIIGYFVL 44 (74)
Q Consensus 6 qaa~~~~eVLHQR~~Lp~~p~~mai~G~~i~~~igY~VL 44 (74)
...+++.+.+.+=...|+...-+.+.|+++++.-.|.+.
T Consensus 28 ~~~~~~~~~~~~l~~~p~G~~ll~~vg~gli~~gi~~~~ 66 (73)
T PF06724_consen 28 SSDQGSQGALAWLLEQPFGRWLLGAVGLGLIGYGIWQFV 66 (73)
T ss_pred CCCCCHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHH
Confidence 345666777777778899999999999998887777654
No 23
>TIGR03024 arch_pef_cterm PEF-C-terminal archaeal protein sorting domain. This domain, distantly related to the PEP-Cterm domain described in model TIGR02595, is found in Methanosarcina mazei in four different proteins, as well as in other archaea such as Methanococcoides burtonii. Several proteins with this domain have their genes only a short distance from a distant homology of EpsH, a proposed integral membrane transpeptidase.
Probab=44.22 E-value=9.7 Score=20.60 Aligned_cols=17 Identities=12% Similarity=0.471 Sum_probs=14.1
Q ss_pred HHHHhhhhhheeeeccC
Q 045567 33 FAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 33 ~~i~~~igY~VLY~kKK 49 (74)
+.|++.+|-++.+.|||
T Consensus 9 l~I~all~i~~i~~rrK 25 (26)
T TIGR03024 9 LPIIALLAIIVILRRRK 25 (26)
T ss_pred HHHHHHHHHHHHHhhcc
Confidence 66788888899988887
No 24
>PF04689 S1FA: DNA binding protein S1FA; InterPro: IPR006779 S1FA is an unusual small plant peptide of only 70 amino acids with a basic domain which contains a nuclear localization signal and a putative DNA binding helix. S1FA is highly conserved between dicotyledonous and monocotyledonous plants and may be a DNA-binding protein that specifically recognises the negative promoter element S1F [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=44.08 E-value=10 Score=24.76 Aligned_cols=27 Identities=26% Similarity=0.535 Sum_probs=21.4
Q ss_pred cCCCChhH---HHHHhHHHHhhhhhheeee
Q 045567 20 SLGQCPLK---MALTGFAFAGIIGYFVLYS 46 (74)
Q Consensus 20 ~Lp~~p~~---mai~G~~i~~~igY~VLY~ 46 (74)
.-.++|.- ..|+|++++..+|-+|||.
T Consensus 7 ~KGlnPGlIVLlvV~g~ll~flvGnyvlY~ 36 (69)
T PF04689_consen 7 AKGLNPGLIVLLVVAGLLLVFLVGNYVLYV 36 (69)
T ss_pred ccCCCCCeEEeehHHHHHHHHHHHHHHHHH
Confidence 34566654 4689999999999999994
No 25
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=44.05 E-value=15 Score=21.39 Aligned_cols=16 Identities=31% Similarity=0.700 Sum_probs=9.5
Q ss_pred HHHhhhhhhee--eeccC
Q 045567 34 AFAGIIGYFVL--YSKKK 49 (74)
Q Consensus 34 ~i~~~igY~VL--Y~kKK 49 (74)
+|+.+|++|.+ |.++|
T Consensus 23 vI~~vl~~~l~~~~rR~k 40 (40)
T PF08693_consen 23 VIIIVLGAFLFFWYRRKK 40 (40)
T ss_pred HHHHHHHHHhheEEeccC
Confidence 45555655555 77765
No 26
>PF12072 DUF3552: Domain of unknown function (DUF3552); InterPro: IPR022711 This presumed domain is functionally uncharacterised. This domain is found in bacteria, archaea and eukaryotes. This domain is about 200 amino acids in length. This domain is found associated with PF00013 from PFAM, PF01966 from PFAM. This domain has a single completely conserved residue A that may be functionally important. ; GO: 0008663 2',3'-cyclic-nucleotide 2'-phosphodiesterase activity
Probab=41.45 E-value=17 Score=25.64 Aligned_cols=18 Identities=28% Similarity=0.381 Sum_probs=14.6
Q ss_pred HHHHhHHHHhhhhhheee
Q 045567 28 MALTGFAFAGIIGYFVLY 45 (74)
Q Consensus 28 mai~G~~i~~~igY~VLY 45 (74)
.+|.||+|..++||++..
T Consensus 5 ~~i~~~~vG~~~G~~~~~ 22 (201)
T PF12072_consen 5 IAIVALIVGIGIGYLVRK 22 (201)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 467888888999999854
No 27
>PF09716 ETRAMP: Malarial early transcribed membrane protein (ETRAMP); InterPro: IPR006389 These sequences represent a family of proteins from the malaria parasite Plasmodium falciparum, several of which have been shown to be expressed specifically in the ring stage as well as the rodent parasite Plasmodium yoelii []. A homologue from Plasmodium chabaudi was localized to the parasitophorous vacuole membrane []. Members have an initial hydrophobic, Phe/Tyr-rich stretch long enough to span the membrane, a highly charged region rich in Lys, a second putative transmembrane region, and a second highly charged, low complexity sequence region. Some members have up to 100 residues of additional C-terminal sequence. These genes have been shown to be found in the sub-telomeric regions of both Plasmodium falciparum and P. yoelii chromosomes.
Probab=41.18 E-value=17 Score=23.10 Aligned_cols=20 Identities=30% Similarity=0.262 Sum_probs=13.7
Q ss_pred HHhHHHHhhhhhheeeeccC
Q 045567 30 LTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 30 i~G~~i~~~igY~VLY~kKK 49 (74)
...+++.+++||...+.||+
T Consensus 64 ~lalli~~~~G~g~y~~~k~ 83 (84)
T PF09716_consen 64 GLALLIATALGYGYYKKKKK 83 (84)
T ss_pred HHHHHHHHHHHHHHHhhccC
Confidence 34457778888887766664
No 28
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=39.74 E-value=25 Score=25.98 Aligned_cols=19 Identities=26% Similarity=0.453 Sum_probs=14.8
Q ss_pred HHHHHhHHHHhhhhhheee
Q 045567 27 KMALTGFAFAGIIGYFVLY 45 (74)
Q Consensus 27 ~mai~G~~i~~~igY~VLY 45 (74)
-.+|+|++|+..|.|++--
T Consensus 278 G~~La~lvlivLiaYli~R 296 (306)
T PF01299_consen 278 GAALAGLVLIVLIAYLIGR 296 (306)
T ss_pred HHHHHHHHHHHHHhheeEe
Confidence 4568899999999997643
No 29
>smart00103 ALBUMIN serum albumin.
Probab=38.47 E-value=12 Score=26.16 Aligned_cols=22 Identities=36% Similarity=0.538 Sum_probs=19.3
Q ss_pred hheeeeccCCCcchhhhhhhhh
Q 045567 41 YFVLYSKKKPEASALDVAKVTA 62 (74)
Q Consensus 41 Y~VLY~kKKPEasA~DVAKVa~ 62 (74)
++|.|++|-|.+|-.+|.|++-
T Consensus 28 ~li~~sqk~p~asfeev~~l~~ 49 (187)
T smart00103 28 LLIRYSQKVPQASFEEVVKLVK 49 (187)
T ss_pred HHHHHHhhcCCCCHHHHHHHHH
Confidence 5678999999999999998875
No 30
>cd00015 ALBUMIN Albumin domain, contains five or six internal disulphide bonds; albuminoid superfamily includes alpha-fetoprotein which binds various cations, fatty acids and bilirubin; vitamin D-binding protein which binds to vitamin D, its metabolites, and fatty acids; alpha-albumin which binds water, cations (such as Ca2+, Na+ and K+), fatty acids, hormones, bilirubin and drugs; and afamin of which little is known; these belong to a multigene family with highly conserved intron/exon organization and encoded protein structures; evolutionary comparisons strongly support vitamin D-binding protein as the original gene in this group with subsequent local duplications generating the remaining genes in the cluster
Probab=38.17 E-value=12 Score=26.02 Aligned_cols=22 Identities=32% Similarity=0.499 Sum_probs=19.2
Q ss_pred hheeeeccCCCcchhhhhhhhh
Q 045567 41 YFVLYSKKKPEASALDVAKVTA 62 (74)
Q Consensus 41 Y~VLY~kKKPEasA~DVAKVa~ 62 (74)
++|.|++|-|.+|-.+|.|++-
T Consensus 19 ~li~~sqk~p~a~feev~~l~~ 40 (185)
T cd00015 19 TLVRYSQKAPQATFEELVKLVK 40 (185)
T ss_pred HHHHHHhhcCCCCHHHHHHHHH
Confidence 4678999999999999998874
No 31
>TIGR00943 2a6301s02 monovalent cation:proton antiporter. This family of proteins constists of bacterial multicomponent K+:H+ and Na+:H+ antiporters. The best characterized systems are the PhaABCDEFG system of Rhizobium meliloti which functions in pH adaptation and as a K+ efflux system and the MnhABCDEFG system of Staphylococcus aureus which functions as a Na+:H+ antiporter.This family is specific for the phaB and mnhB proteins.
Probab=37.76 E-value=30 Score=22.99 Aligned_cols=24 Identities=29% Similarity=0.283 Sum_probs=19.0
Q ss_pred cccCCCChhHHHHHhHHHHhhhhh
Q 045567 18 RKSLGQCPLKMALTGFAFAGIIGY 41 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~i~~~igY 41 (74)
|+.+|..|.++...|+++....|.
T Consensus 36 ~~~~~~~~~~l~~~Gll~~~~tgl 59 (107)
T TIGR00943 36 RKILPLDPKRLIGIGLLLAIATGV 59 (107)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHH
Confidence 688999999988888876655554
No 32
>PF15110 TMEM141: TMEM141 protein family; PDB: 2LOR_A.
Probab=36.44 E-value=32 Score=23.42 Aligned_cols=28 Identities=18% Similarity=0.067 Sum_probs=19.3
Q ss_pred cccCCCChhHHHHHhHHHHhhhhhheee
Q 045567 18 RKSLGQCPLKMALTGFAFAGIIGYFVLY 45 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~i~~~igY~VLY 45 (74)
||||||..-.--+.-.+...+.+|-|-+
T Consensus 50 qrrlpYp~q~~~LVS~v~~sv~sY~vT~ 77 (94)
T PF15110_consen 50 QRRLPYPFQWNILVSVVVASVASYQVTR 77 (94)
T ss_dssp HTTSSSSS-HHHHHHHHHHHHHHHHHHH
T ss_pred HHhCCCCCCchhHHHHHHhhhhhhhhhh
Confidence 5788887766666666667778887643
No 33
>TIGR00851 mtlA PTS system, mannitol-specific IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Fru family is a large and complex family which includes several sequenced fructose and mannitol-specific permeases as well as several putative PTS permeases of unknown specificities.The Fru family PTS systems typically have 3 domains, IIA, IIB and IIC, which may be found as 1 or more proteins. The fructose and mannitol transporters form separate phylogenetic clusters in this family. This family is specific for the IIC domain of the mannitol PTS transporters.
Probab=36.21 E-value=19 Score=27.72 Aligned_cols=24 Identities=29% Similarity=0.400 Sum_probs=18.5
Q ss_pred HHhHHHHhhhhhheeeeccCCCcc
Q 045567 30 LTGFAFAGIIGYFVLYSKKKPEAS 53 (74)
Q Consensus 30 i~G~~i~~~igY~VLY~kKKPEas 53 (74)
+.++++..++.|+..+.+||||..
T Consensus 313 ~ia~vv~fvlt~~~~~~~~~~~~~ 336 (338)
T TIGR00851 313 LVAAAVSFVVSAIILKSSKDPEED 336 (338)
T ss_pred HHHHHHHHHHHHHHHHhccccccc
Confidence 455666677888888999999963
No 34
>PF07589 VPEP: PEP-CTERM motif; InterPro: IPR013424 This entry describes a 25-residue region including an invariant Pro-Glu-Pro (PEP) motif, a thirteen residue strongly hydrophobic sequence likely to span the membrane, and a five-residue strongly basic motif that often contains four Arg residues. In most cases, this motif is found within nine residues of the C-terminal end of the protein. Proteins containing this motif typically have signal sequences at the N terminus [].
Probab=36.19 E-value=34 Score=17.69 Aligned_cols=16 Identities=31% Similarity=0.559 Sum_probs=9.9
Q ss_pred hhHHHHHhHHHHhhhh
Q 045567 25 PLKMALTGFAFAGIIG 40 (74)
Q Consensus 25 p~~mai~G~~i~~~ig 40 (74)
|.++++.++++.++..
T Consensus 5 Pst~~l~~~gl~~l~~ 20 (25)
T PF07589_consen 5 PSTLALLGLGLLGLAF 20 (25)
T ss_pred cHHHHHHHHHHHHHHH
Confidence 6677777766555443
No 35
>PF09604 Potass_KdpF: F subunit of K+-transporting ATPase (Potass_KdpF); InterPro: IPR011726 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. P-ATPases (sometime known as E1-E2 ATPases) (3.6.3.- from EC) are found in bacteria and in a number of eukaryotic plasma membranes and organelles []. P-ATPases function to transport a variety of different compounds, including ions and phospholipids, across a membrane using ATP hydrolysis for energy. There are many different classes of P-ATPases, each of which transports a specific type of ion: H+, Na+, K+, Mg2+, Ca2+, Ag+ and Ag2+, Zn2+, Co2+, Pb2+, Ni2+, Cd2+, Cu+ and Cu2+. P-ATPases can be composed of one or two polypeptides, and can usually assume two main conformations called E1 and E2. This entry represents the F subunit (KdpF) of a P-type K+-translocating ATPase (Kdp). KdpF is a very small integral membrane peptide. The kdpABC operon of Escherichia coli codes for the high affinity K+-translocating Kdp complex []. KdpF is found upstream of the KdpA subunit (IPR004623 from INTERPRO). Because of its very small size and highly hydrophobic character, it is sometimes missed in genome annotation. More information about this protein can be found at Protein of the Month: ATP Synthases [].
Probab=36.12 E-value=18 Score=19.22 Aligned_cols=22 Identities=27% Similarity=0.591 Sum_probs=15.0
Q ss_pred HHHhHHHHhhhhhheeeeccCCC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKPE 51 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKPE 51 (74)
.++|++.++.++|. +|+-=+||
T Consensus 2 ~l~~~v~~~L~~YL-~~aLl~PE 23 (25)
T PF09604_consen 2 ILGGIVAVALFVYL-FYALLRPE 23 (25)
T ss_pred hHHHHHHHHHHHHH-HHHHhCcc
Confidence 46777777887775 35656666
No 36
>PF07863 CtnDOT_TraJ: Homologues of TraJ from Bacteroides conjugative transposon; InterPro: IPR012424 Proteins in this entry are designated TraJ and are found in a proposed transfer region of a class of conjugative transposon found primarily in the Bacteroides lineage. They are related to conjugation system proteins in the Proteobacteria, including TrbL of Agrobacterium Ti plasmids and VirB6. This entry represents the C-terminal domain of these proteins.
Probab=35.95 E-value=4.1 Score=26.22 Aligned_cols=12 Identities=50% Similarity=1.204 Sum_probs=9.7
Q ss_pred HHHHhhhhhhee
Q 045567 33 FAFAGIIGYFVL 44 (74)
Q Consensus 33 ~~i~~~igY~VL 44 (74)
|+|++++|||..
T Consensus 1 FmiIGIvGYFtV 12 (68)
T PF07863_consen 1 FMIIGIVGYFTV 12 (68)
T ss_pred CeEEEEEEEEEc
Confidence 578899999864
No 37
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=35.08 E-value=20 Score=25.10 Aligned_cols=25 Identities=28% Similarity=0.408 Sum_probs=19.6
Q ss_pred hHHHHHhHHHHhhhhhheeeeccCC
Q 045567 26 LKMALTGFAFAGIIGYFVLYSKKKP 50 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~kKKP 50 (74)
+...+++++++++++|+++|+-+.-
T Consensus 9 l~~~~~~~~~~~~~~~L~~~a~~~~ 33 (148)
T PRK13254 9 LLIILGALAALGLAVALVLYALRQN 33 (148)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4668888889999999998875543
No 38
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=31.63 E-value=40 Score=21.87 Aligned_cols=14 Identities=14% Similarity=0.513 Sum_probs=8.7
Q ss_pred HHhhhhhheeeecc
Q 045567 35 FAGIIGYFVLYSKK 48 (74)
Q Consensus 35 i~~~igY~VLY~kK 48 (74)
|+++|-|++++.+|
T Consensus 82 lv~~l~w~f~~r~k 95 (96)
T PTZ00382 82 LVGFLCWWFVCRGK 95 (96)
T ss_pred HHHHHhheeEEeec
Confidence 44556677777655
No 39
>PRK00733 hppA membrane-bound proton-translocating pyrophosphatase; Validated
Probab=31.33 E-value=55 Score=28.56 Aligned_cols=23 Identities=13% Similarity=0.629 Sum_probs=18.0
Q ss_pred ChhHHHHHhHHHHhhhhhheeee
Q 045567 24 CPLKMALTGFAFAGIIGYFVLYS 46 (74)
Q Consensus 24 ~p~~mai~G~~i~~~igY~VLY~ 46 (74)
+-+-|.+.|+.+.+..+++.+|.
T Consensus 106 ~vmGl~vvgl~Llgl~~~~~~~~ 128 (666)
T PRK00733 106 AVMGLLVVGLGLLGVAGLYLVFG 128 (666)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHh
Confidence 34667888888888888888776
No 40
>PF14715 FixP_N: N-terminal domain of cytochrome oxidase-cbb3, FixP
Probab=30.96 E-value=39 Score=20.10 Aligned_cols=24 Identities=25% Similarity=0.180 Sum_probs=16.8
Q ss_pred CChhHHHHHhHHHHhhhhhheeee
Q 045567 23 QCPLKMALTGFAFAGIIGYFVLYS 46 (74)
Q Consensus 23 ~~p~~mai~G~~i~~~igY~VLY~ 46 (74)
.-+--+.+--..|+-+++|+++|.
T Consensus 20 lP~ww~~~f~~tivfa~~Y~~~yp 43 (51)
T PF14715_consen 20 LPRWWLWLFYGTIVFAVGYLVLYP 43 (51)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 334455555667788899999984
No 41
>PF10177 DUF2371: Uncharacterised conserved protein (DUF2371); InterPro: IPR018787 This family of proteins with no known function is conserved from nematodes to humans. It includes members of the TMEM200 family of transmembrane proteins.
Probab=30.47 E-value=15 Score=26.12 Aligned_cols=25 Identities=28% Similarity=0.279 Sum_probs=18.9
Q ss_pred CChhHHHHHhHHHHhhhhhheeeeccC
Q 045567 23 QCPLKMALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 23 ~~p~~mai~G~~i~~~igY~VLY~kKK 49 (74)
++|..|-||+|+++.+. .+||-++.
T Consensus 108 ~GPliMGIGiFifIcAn--avl~EnRD 132 (141)
T PF10177_consen 108 FGPLIMGIGIFIFICAN--AVLHENRD 132 (141)
T ss_pred ecceEEecchhHHhHhH--HHhhhhcc
Confidence 68999999999998765 45554443
No 42
>TIGR02223 ftsN cell division protein FtsN. FtsN is a poorly conserved protein active in cell division in a number of Proteobacteria. The N-terminal 30 residue region tends to by Lys/Arg-rich, and is followed by a membrane-spanning region. This is followed by an acidic low-complexity region of variable length and a well-conserved C-terminal domain of two tandem regions matched by Pfam model pfam05036 (Sporulation related repeat), found in several cell division and sporulation proteins. The role of FtsN as a suppressor for other cell division mutations is poorly understood; it may involve cell wall hydrolysis.
Probab=30.32 E-value=78 Score=24.40 Aligned_cols=17 Identities=12% Similarity=0.180 Sum_probs=10.3
Q ss_pred ChhHHHHHhHHHHhhhh
Q 045567 24 CPLKMALTGFAFAGIIG 40 (74)
Q Consensus 24 ~p~~mai~G~~i~~~ig 40 (74)
.+.+++|++++++-.+|
T Consensus 24 ~~~~~~la~a~~vl~~g 40 (298)
T TIGR02223 24 VRATVLIAAILILLFIG 40 (298)
T ss_pred chHHHHHHHHHHHHHhh
Confidence 34566666666666655
No 43
>PRK12574 putative monovalent cation/H+ antiporter subunit B; Reviewed
Probab=30.21 E-value=45 Score=23.12 Aligned_cols=23 Identities=22% Similarity=0.216 Sum_probs=17.8
Q ss_pred cccCCCChhHHHHHhHHHHhhhh
Q 045567 18 RKSLGQCPLKMALTGFAFAGIIG 40 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~i~~~ig 40 (74)
|+.+|..|.++...|+++....|
T Consensus 61 ~~~~~~~~~~l~~~Gll~~~~tg 83 (141)
T PRK12574 61 LESLPIDFRKLMIIGLLLSSITA 83 (141)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHH
Confidence 57899999998888887665444
No 44
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=29.73 E-value=18 Score=24.14 Aligned_cols=24 Identities=25% Similarity=0.456 Sum_probs=0.0
Q ss_pred hHHHHHhHHHHhhhhhheeeeccC
Q 045567 26 LKMALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~kKK 49 (74)
+.+.+++++++++++|+++|+-..
T Consensus 8 l~~~~~~~~~i~~~~~l~~~~~~~ 31 (131)
T PF03100_consen 8 LILVVLGLVIIAAAIYLILYSFSD 31 (131)
T ss_dssp ------------------------
T ss_pred hhhHHHHHHHHHHHHHHHHHHhhc
Confidence 456788888888898988887643
No 45
>PRK10927 essential cell division protein FtsN; Provisional
Probab=29.13 E-value=68 Score=25.76 Aligned_cols=31 Identities=23% Similarity=0.338 Sum_probs=17.8
Q ss_pred CChhHHHHHhHHHHhhhhhheee-eccCCCcc
Q 045567 23 QCPLKMALTGFAFAGIIGYFVLY-SKKKPEAS 53 (74)
Q Consensus 23 ~~p~~mai~G~~i~~~igY~VLY-~kKKPEas 53 (74)
++++.+||+.++++..||=+.+. +.|+.|..
T Consensus 32 ~~~~m~alAvavlv~fiGGLyFith~k~~e~~ 63 (319)
T PRK10927 32 VSPAMVAIAAAVLVTFIGGLYFITHHKKEESE 63 (319)
T ss_pred cchHHHHHHHHHHHHHhhheEEEecCCCCCCc
Confidence 55666777777777666643333 34444443
No 46
>PF07872 DUF1659: Protein of unknown function (DUF1659); InterPro: IPR012454 This family consists of hypothetical bacterial proteins of unknown function
Probab=28.67 E-value=37 Score=19.43 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=14.5
Q ss_pred eeccCCCcchhhhhhhh
Q 045567 45 YSKKKPEASALDVAKVT 61 (74)
Q Consensus 45 Y~kKKPEasA~DVAKVa 61 (74)
|++=||+|++.||--|+
T Consensus 29 ~~nvk~~Atdedl~~Va 45 (47)
T PF07872_consen 29 FSNVKPDATDEDLYDVA 45 (47)
T ss_pred hhhcCCCCCHHHHHHHh
Confidence 67789999999998776
No 47
>PF00746 Gram_pos_anchor: Gram positive anchor; InterPro: IPR019948 Viruses, parasites and bacteria are covered in protein and sugar molecules that help them gain entry into a host by counteracting the host's defences. One such molecule is the M protein produced by certain streptococcal bacteria. M proteins embody a motif that is now known to be shared by many Gram-positive bacterial surface proteins. The motif includes a conserved hexapeptide, which precedes a hydrophobic C-terminal membrane anchor, which itself precedes a cluster of basic residues [, ]. This structure is represented in the following schematic representation: +--------------------------------------------+-+--------+-+ | Variable length extracellular domain |H| Anchor |B| +--------------------------------------------+-+--------+-+ 'H': conserved hexapeptide. 'B': cluster of basic residues. It has been proposed that this hexapeptide sequence is responsible for a post- translational modification necessary for the proper anchoring of the proteins which bear it, to the cell wall.; PDB: 2XTL_B 3QDH_A 2Y1V_C 2X9X_A 3RPK_A 2X9W_A 2X9Y_A.
Probab=28.05 E-value=20 Score=19.08 Aligned_cols=7 Identities=14% Similarity=0.339 Sum_probs=0.0
Q ss_pred HHHHHhH
Q 045567 27 KMALTGF 33 (74)
Q Consensus 27 ~mai~G~ 33 (74)
.+.+.|.
T Consensus 19 ~~~~~G~ 25 (39)
T PF00746_consen 19 ILTILGA 25 (39)
T ss_dssp -------
T ss_pred HHHHHHH
Confidence 3455555
No 48
>COG3339 Uncharacterized conserved protein [Function unknown]
Probab=27.26 E-value=31 Score=23.88 Aligned_cols=12 Identities=33% Similarity=0.728 Sum_probs=9.5
Q ss_pred HHHHhhhhhhee
Q 045567 33 FAFAGIIGYFVL 44 (74)
Q Consensus 33 ~~i~~~igY~VL 44 (74)
++|.+++||+|+
T Consensus 51 l~i~aal~Y~V~ 62 (116)
T COG3339 51 LIILAALGYFVS 62 (116)
T ss_pred HHHHHHHHHHHc
Confidence 457888999986
No 49
>PRK07718 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=27.14 E-value=67 Score=21.63 Aligned_cols=13 Identities=8% Similarity=0.194 Sum_probs=7.3
Q ss_pred HHhhhhhheeeec
Q 045567 35 FAGIIGYFVLYSK 47 (74)
Q Consensus 35 i~~~igY~VLY~k 47 (74)
.+|+.+||.+..+
T Consensus 18 ~~g~~~~~~~~~~ 30 (142)
T PRK07718 18 LIGTAALVLVMGF 30 (142)
T ss_pred HHHHHHHhhhccc
Confidence 3355566666654
No 50
>PRK12509 putative monovalent cation/H+ antiporter subunit B; Reviewed
Probab=26.91 E-value=54 Score=22.68 Aligned_cols=25 Identities=28% Similarity=0.392 Sum_probs=18.9
Q ss_pred cccCCCChhHHHHHhHHHHhhhhhh
Q 045567 18 RKSLGQCPLKMALTGFAFAGIIGYF 42 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~i~~~igY~ 42 (74)
|+.+|..|.++...|+++....|..
T Consensus 59 ~~~~~~~~~~~~~~Gll~~~~tGl~ 83 (137)
T PRK12509 59 RRLLRVDPLRLLAAGLLVAVLSGLP 83 (137)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHHH
Confidence 6889999999888888766555443
No 51
>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=26.75 E-value=54 Score=19.57 Aligned_cols=16 Identities=25% Similarity=0.191 Sum_probs=10.6
Q ss_pred HHHHHhHHHHhhhhhh
Q 045567 27 KMALTGFAFAGIIGYF 42 (74)
Q Consensus 27 ~mai~G~~i~~~igY~ 42 (74)
...+.|.++-+++|++
T Consensus 3 ~g~l~Ga~~Ga~~glL 18 (74)
T PF12732_consen 3 LGFLAGAAAGAAAGLL 18 (74)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4456777777777764
No 52
>PF09577 Spore_YpjB: Sporulation protein YpjB (SpoYpjB); InterPro: IPR014231 Proteins in thie entry, typified by YpjB, are restricted to a subset of the endospore-forming bacteria which includes Bacillus species, but not species. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon []. Sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect, but this gene is not, however, a part of the endospore formation minimal gene set.
Probab=26.50 E-value=45 Score=25.10 Aligned_cols=17 Identities=18% Similarity=0.165 Sum_probs=14.6
Q ss_pred hHHHHHhHHHHhhhhhh
Q 045567 26 LKMALTGFAFAGIIGYF 42 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~ 42 (74)
..|.+.|.+|+++|.|.
T Consensus 201 Wv~l~iG~iIi~tLtYv 217 (232)
T PF09577_consen 201 WVMLSIGGIIIATLTYV 217 (232)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 45888999999999995
No 53
>PF07444 Ycf66_N: Ycf66 protein N-terminus; InterPro: IPR010004 This entry represents Ycf66, a protein that is restricted to the chloroplasts of simple plants and algae. It is also found in the cyanobacteria. The function is unknown. As the family is exclusively found in phototrophic organisms it may play a role in photosynthesis.
Probab=25.91 E-value=58 Score=21.29 Aligned_cols=34 Identities=24% Similarity=0.290 Sum_probs=24.6
Q ss_pred cCCCChhHHHHHhHHHHhhhhhheeeeccCCCcchh
Q 045567 20 SLGQCPLKMALTGFAFAGIIGYFVLYSKKKPEASAL 55 (74)
Q Consensus 20 ~Lp~~p~~mai~G~~i~~~igY~VLY~kKKPEasA~ 55 (74)
++.++|...--..+++.+.+=|++ .+-+||-+-.
T Consensus 2 n~~~~~~~iLgi~l~~~~~~Ly~l--r~~~Pev~Rd 35 (84)
T PF07444_consen 2 NFGFGPSYILGIILILGGLALYFL--RFFRPEVSRD 35 (84)
T ss_pred ccccCHHHHHHHHHHHHHHHHHHH--HHHCcchhhh
Confidence 456788877766777777777764 7888998754
No 54
>PRK14759 potassium-transporting ATPase subunit F; Provisional
Probab=25.77 E-value=49 Score=18.38 Aligned_cols=23 Identities=30% Similarity=0.609 Sum_probs=16.7
Q ss_pred HHHHhHHHHhhhhhheeeeccCCC
Q 045567 28 MALTGFAFAGIIGYFVLYSKKKPE 51 (74)
Q Consensus 28 mai~G~~i~~~igY~VLY~kKKPE 51 (74)
-+++|++.++.+.|.+ |+--+||
T Consensus 5 ~~l~~~va~~L~vYL~-~ALlrPE 27 (29)
T PRK14759 5 YSLAGAVSLGLLIYLT-YALLRPE 27 (29)
T ss_pred HHHHHHHHHHHHHHHH-HHHhCcc
Confidence 4688899999998875 4545555
No 55
>KOG3300 consensus NADH:ubiquinone oxidoreductase, B16.6 subunit/cell death-regulatory protein [Energy production and conversion; Cell cycle control, cell division, chromosome partitioning]
Probab=25.49 E-value=41 Score=24.59 Aligned_cols=31 Identities=19% Similarity=0.021 Sum_probs=26.2
Q ss_pred cCCCChhHHHHHhHHHHhhhhhheeeeccCC
Q 045567 20 SLGQCPLKMALTGFAFAGIIGYFVLYSKKKP 50 (74)
Q Consensus 20 ~Lp~~p~~mai~G~~i~~~igY~VLY~kKKP 50 (74)
|+-+|+++|..++++.++.--|.++-.+||-
T Consensus 30 k~~~Sg~t~~aa~~gatayG~~~~~~~~kk~ 60 (146)
T KOG3300|consen 30 KTGPSGMTMFAAVSGATAYGMYQVGQGNKKR 60 (146)
T ss_pred ccCCCcchhhhHHHHHHHHHHHHHHhchhHH
Confidence 7789999999999988888888888777763
No 56
>PRK14748 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=24.76 E-value=42 Score=18.80 Aligned_cols=22 Identities=23% Similarity=0.342 Sum_probs=14.6
Q ss_pred HHHhHHHHhhhhhheeeeccCCC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKPE 51 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKPE 51 (74)
-+|+++++..+||.| |+--+||
T Consensus 6 i~G~ilv~lLlgYLv-yALi~aE 27 (29)
T PRK14748 6 ITGVLLVFLLLGYLV-YALINAE 27 (29)
T ss_pred HHHHHHHHHHHHHHH-HHHhCcc
Confidence 356777888899987 3444444
No 57
>PF08566 Pam17: Mitochondrial import protein Pam17; InterPro: IPR013875 The presequence translocase-associated motor (PAM) drives the completion of preprotein translocation into the mitochondrial matrix. The Pam17 subunit is required for formation of a stable complex between cochaperones Pam16 and Pam18 and promotes the association of Pam16-Pam18 with the presequence translocase []. Mitochondria lacking Pam17 are selectively impaired in the import of matrix proteins [].
Probab=24.57 E-value=68 Score=23.65 Aligned_cols=23 Identities=22% Similarity=0.385 Sum_probs=17.4
Q ss_pred CCCChhHHHHHhHHHHhhhhhhe
Q 045567 21 LGQCPLKMALTGFAFAGIIGYFV 43 (74)
Q Consensus 21 Lp~~p~~mai~G~~i~~~igY~V 43 (74)
+++.|.-...++.+..|++||.+
T Consensus 72 ~GlDP~~~~g~~t~a~g~lG~L~ 94 (173)
T PF08566_consen 72 MGLDPFMVYGLATLACGALGWLV 94 (173)
T ss_pred cCcCHHHHHHHHHHHHHHHHHHh
Confidence 58888877777777777888764
No 58
>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=24.49 E-value=18 Score=21.83 Aligned_cols=26 Identities=19% Similarity=0.179 Sum_probs=13.2
Q ss_pred ccCCCChhHHHHHhHHHHhhhhhheee
Q 045567 19 KSLGQCPLKMALTGFAFAGIIGYFVLY 45 (74)
Q Consensus 19 ~~Lp~~p~~mai~G~~i~~~igY~VLY 45 (74)
+||-.++.-+ +..++++|++||+-+.
T Consensus 6 ~KL~~~f~~~-~~l~~~~~~~~~~~l~ 31 (181)
T PF12729_consen 6 TKLILGFGLI-ILLLLIVGIVGLYSLS 31 (181)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 3443443333 3345666777766554
No 59
>PF04612 T2SM: Type II secretion system (T2SS), protein M; InterPro: IPR007690 General secretion pathway (GSP) protein M is a membrane protein involved in the export of proteins in bacteria. It consists of a short cytosolic N-terminal domain, a transmembrane domain, and a C-terminal periplasmic domain. The precise function of this protein is unknown, though in Vibrio cholerae, the EpsM protein interacts with the EpsL protein, and also forms homodimers [],; GO: 0006858 extracellular transport; PDB: 1UV7_A.
Probab=24.42 E-value=25 Score=22.83 Aligned_cols=19 Identities=16% Similarity=0.401 Sum_probs=0.0
Q ss_pred HHHHhHHHHhhhhhheeee
Q 045567 28 MALTGFAFAGIIGYFVLYS 46 (74)
Q Consensus 28 mai~G~~i~~~igY~VLY~ 46 (74)
++++|++++.++.|+.++.
T Consensus 19 l~~~~~~l~~~l~~~~~~~ 37 (160)
T PF04612_consen 19 LLVLGVVLLLALLYLLLWQ 37 (160)
T ss_dssp -------------------
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4677888888888888873
No 60
>COG2332 CcmE Cytochrome c-type biogenesis protein CcmE [Posttranslational modification, protein turnover, chaperones]
Probab=24.19 E-value=46 Score=24.32 Aligned_cols=25 Identities=28% Similarity=0.331 Sum_probs=20.0
Q ss_pred hHHHHHhHHHHhhhhhheeeeccCC
Q 045567 26 LKMALTGFAFAGIIGYFVLYSKKKP 50 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~kKKP 50 (74)
++..+++++.+++..+.+||.-.+-
T Consensus 9 l~~il~~~a~l~~a~~l~Lyal~~n 33 (153)
T COG2332 9 LWIILAGLAGLALAVGLVLYALRSN 33 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhccC
Confidence 4567888999999999999976543
No 61
>PF09909 DUF2138: Uncharacterized protein conserved in bacteria (DUF2138); InterPro: IPR018671 This family of conserved hypothetical proteins has no known function.
Probab=24.04 E-value=67 Score=27.75 Aligned_cols=40 Identities=13% Similarity=0.285 Sum_probs=33.3
Q ss_pred HHHhHHHHhhhhhheeeeccCCCcchhhhhhhhhccCCCC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKPEASALDVAKVTAGVARPE 68 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKPEasA~DVAKVa~G~a~Pe 68 (74)
.++++++++++.+-..|.+..|+....+...+..+...|+
T Consensus 10 ~~~~l~~~~~~v~~~~w~~~~~~~~~~~~~~~~ldl~~PD 49 (555)
T PF09909_consen 10 GVAALALVAAAVWQLVWHPFGPEKALSPDSELQLDLNRPD 49 (555)
T ss_pred HHHHHHHHHHHHHHheeccCCCcccccccccccCCccCch
Confidence 3448999999999999999999998888777777777665
No 62
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=22.80 E-value=56 Score=23.81 Aligned_cols=22 Identities=14% Similarity=0.437 Sum_probs=12.7
Q ss_pred HHHhHHHHhhhhhheeeeccCC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKP 50 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKP 50 (74)
-|||.+|++++..+.+|..|+.
T Consensus 57 GVGg~ill~il~lvf~~c~r~k 78 (154)
T PF04478_consen 57 GVGGPILLGILALVFIFCIRRK 78 (154)
T ss_pred cccHHHHHHHHHhheeEEEecc
Confidence 3566667666666655544443
No 63
>PF14012 DUF4229: Protein of unknown function (DUF4229)
Probab=22.56 E-value=68 Score=19.74 Aligned_cols=23 Identities=22% Similarity=0.212 Sum_probs=18.1
Q ss_pred CCChhHHHHHhHHHHhhhhhhee
Q 045567 22 GQCPLKMALTGFAFAGIIGYFVL 44 (74)
Q Consensus 22 p~~p~~mai~G~~i~~~igY~VL 44 (74)
++...-.++.+++|...++|+++
T Consensus 29 ~~p~~~~~l~A~vis~~lS~~ll 51 (69)
T PF14012_consen 29 EVPLLVAALLALVISMPLSYVLL 51 (69)
T ss_pred cchHHHHHHHHHHHHHHHHHHHH
Confidence 44556677889999999999876
No 64
>PTZ00234 variable surface protein Vir12; Provisional
Probab=22.55 E-value=48 Score=27.02 Aligned_cols=25 Identities=12% Similarity=0.412 Sum_probs=19.5
Q ss_pred ChhHHHHHhHHHHhhhhhheeeecc
Q 045567 24 CPLKMALTGFAFAGIIGYFVLYSKK 48 (74)
Q Consensus 24 ~p~~mai~G~~i~~~igY~VLY~kK 48 (74)
.+-+=.|.|++|+|+|-|+..|-|-
T Consensus 362 n~~rniim~~ailGtifFlfyyn~s 386 (433)
T PTZ00234 362 EYFRHSIVGASIIGVLVFLFFFFKS 386 (433)
T ss_pred HHHHHHHHHHHHHHHHHHhhhhhcc
Confidence 3445679999999999888888653
No 65
>TIGR01065 hlyIII channel protein, hemolysin III family. This family includes proteins from pathogenic and non-pathogenic bacteria, Homo sapiens and Drosophila. In Bacillus cereus, a pathogen, it has been show to function as a channel-forming cytolysin. The human protein is expressed preferentially in mature macrophages, consistent with a role cytolytic role.
Probab=22.47 E-value=58 Score=22.82 Aligned_cols=19 Identities=37% Similarity=0.389 Sum_probs=13.3
Q ss_pred HHHhhhhhhe---eeeccCCCc
Q 045567 34 AFAGIIGYFV---LYSKKKPEA 52 (74)
Q Consensus 34 ~i~~~igY~V---LY~kKKPEa 52 (74)
.+.+.+-|.+ .|.+|.||-
T Consensus 157 l~~gg~~Y~~G~~fY~~~~p~~ 178 (204)
T TIGR01065 157 LAAGGLLYTVGAIFYALKWPIP 178 (204)
T ss_pred HHHHhHHHHcchHheeecCCCC
Confidence 3444555665 999999995
No 66
>PRK12573 putative monovalent cation/H+ antiporter subunit B; Reviewed
Probab=22.23 E-value=77 Score=21.93 Aligned_cols=24 Identities=29% Similarity=0.207 Sum_probs=17.9
Q ss_pred cccCCCChhHHHHHhHHHHhhhhh
Q 045567 18 RKSLGQCPLKMALTGFAFAGIIGY 41 (74)
Q Consensus 18 R~~Lp~~p~~mai~G~~i~~~igY 41 (74)
|+.+|+.|.++...|+++....|.
T Consensus 61 ~~~~~~~~~~l~~~Gll~~~~~G~ 84 (140)
T PRK12573 61 RRALPFDFKILAGIGLLFAIATGL 84 (140)
T ss_pred HHHcCCCHHHHHHHHHHHHHHHHH
Confidence 578899999888888866654443
No 67
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=22.20 E-value=63 Score=22.37 Aligned_cols=19 Identities=26% Similarity=0.366 Sum_probs=13.4
Q ss_pred HHHhHHHHhhhhhheeeec
Q 045567 29 ALTGFAFAGIIGYFVLYSK 47 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~k 47 (74)
.|.=.+++|++||..+.-|
T Consensus 8 ~i~paa~~gavGY~Y~wwK 26 (126)
T PF07889_consen 8 LIVPAAAIGAVGYGYMWWK 26 (126)
T ss_pred hhhHHHHHHHHHheeeeec
Confidence 3444577888999887655
No 68
>PRK15462 dipeptide/tripeptide permease D; Provisional
Probab=22.11 E-value=61 Score=26.07 Aligned_cols=29 Identities=17% Similarity=-0.064 Sum_probs=20.1
Q ss_pred hhccccCCCChhHHHHHhHHHHhhhhhheee
Q 045567 15 LHQRKSLGQCPLKMALTGFAFAGIIGYFVLY 45 (74)
Q Consensus 15 LHQR~~Lp~~p~~mai~G~~i~~~igY~VLY 45 (74)
|.+|++=|-.|.|+++| .+...+||.+|+
T Consensus 335 l~~~~~~~s~~~Kfa~g--~~~~g~~f~~l~ 363 (493)
T PRK15462 335 SVAGNRTVRIWGKFALG--LGLMSAGFCILT 363 (493)
T ss_pred HhcCCCCCCcHHHHHHH--HHHHHHHHHHHH
Confidence 44566777789999886 344567787774
No 69
>TIGR01495 ETRAMP Plasmodium ring stage membrane protein ETRAMP. These genes have been shown to be found in the sub-telomeric regions of both P. falciparum and P. yoelii chromosomes.
Probab=21.66 E-value=68 Score=20.82 Aligned_cols=31 Identities=16% Similarity=0.051 Sum_probs=16.7
Q ss_pred ccCCCChhHHHHHhHHHHhhhhhheeeeccCC
Q 045567 19 KSLGQCPLKMALTGFAFAGIIGYFVLYSKKKP 50 (74)
Q Consensus 19 ~~Lp~~p~~mai~G~~i~~~igY~VLY~kKKP 50 (74)
+.+=|| +-.+...+++.+++|+...|.+||-
T Consensus 50 K~i~iS-~ias~la~lv~t~~G~g~y~~~kk~ 80 (85)
T TIGR01495 50 KIILYS-SIASGLALLVGAGVGLGYYYKKKNK 80 (85)
T ss_pred ceeehH-HHHHHHHHHHHHHHHHhhhhhcccc
Confidence 344555 3344444556667776665555543
No 70
>PF14387 DUF4418: Domain of unknown function (DUF4418)
Probab=21.62 E-value=67 Score=21.88 Aligned_cols=23 Identities=39% Similarity=0.433 Sum_probs=15.8
Q ss_pred hhHHHHHhHHHHhhhhhheeeeccC
Q 045567 25 PLKMALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 25 p~~mai~G~~i~~~igY~VLY~kKK 49 (74)
|.-..++++.++..+.| +|.+||
T Consensus 102 p~v~v~~~l~iv~~~~~--~f~~~k 124 (124)
T PF14387_consen 102 PAVRVLGGLIIVIGIIY--LFLKKK 124 (124)
T ss_pred HHHHHHHHHHHHHHHHH--HHhcCC
Confidence 44456788888888877 566655
No 71
>PF14155 DUF4307: Domain of unknown function (DUF4307)
Probab=21.62 E-value=43 Score=22.02 Aligned_cols=29 Identities=17% Similarity=0.188 Sum_probs=16.2
Q ss_pred HHHhHHHHhhhhhheeeeccCCCcchhhh
Q 045567 29 ALTGFAFAGIIGYFVLYSKKKPEASALDV 57 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKKPEasA~DV 57 (74)
++++++++++++|+-+...--|+.|+.++
T Consensus 11 ~v~~vv~~~~~~w~~~~~~~~~~v~~~~~ 39 (112)
T PF14155_consen 11 AVLVVVAGAVVAWFGYSQFGSPPVSAEVI 39 (112)
T ss_pred HHHHHHHHHHHhHhhhhhccCCCceEEEE
Confidence 44555556666664444455666666544
No 72
>PF03896 TRAP_alpha: Translocon-associated protein (TRAP), alpha subunit; InterPro: IPR005595 The alpha-subunit of the TRAP complex (TRAP alpha) is a single-spanning membrane protein of the endoplasmic reticulum (ER) which is found in proximity of nascent polypeptide chains translocating across the membrane [].; GO: 0005783 endoplasmic reticulum
Probab=21.53 E-value=81 Score=24.33 Aligned_cols=12 Identities=25% Similarity=0.426 Sum_probs=8.8
Q ss_pred hhhhhhccCCCC
Q 045567 57 VAKVTAGVARPE 68 (74)
Q Consensus 57 VAKVa~G~a~Pe 68 (74)
..||-+|+++..
T Consensus 238 ~~~VE~GT~~~~ 249 (285)
T PF03896_consen 238 AKKVETGTSSTN 249 (285)
T ss_pred CCcccCCCCCCC
Confidence 678888887643
No 73
>PF13886 DUF4203: Domain of unknown function (DUF4203)
Probab=21.48 E-value=67 Score=22.26 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=25.1
Q ss_pred hHHHHHhHHHHhhhhhheeeeccCCCcchhhhhh
Q 045567 26 LKMALTGFAFAGIIGYFVLYSKKKPEASALDVAK 59 (74)
Q Consensus 26 ~~mai~G~~i~~~igY~VLY~kKKPEasA~DVAK 59 (74)
.+|.+.|+.+.+.+.|.+.+.-.-|+..+.--+-
T Consensus 24 ~~~fl~Gf~~g~~~~~~i~~~~~~~~~~~~~~~~ 57 (210)
T PF13886_consen 24 ATMFLSGFLFGSLITFVIILRINVLVSNANLGAS 57 (210)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccchhHHHHHH
Confidence 4788999999999998888777766664443333
No 74
>COG1766 fliF Flagellar basal body M-ring protein [Cell motility and secretion]
Probab=21.37 E-value=74 Score=26.69 Aligned_cols=22 Identities=18% Similarity=0.383 Sum_probs=17.3
Q ss_pred HHHHhHHHHhhhhhheeeeccC
Q 045567 28 MALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 28 mai~G~~i~~~igY~VLY~kKK 49 (74)
+.++|+++++++..+.||+++.
T Consensus 27 l~~~~~~~v~~~v~l~l~~~~p 48 (545)
T COG1766 27 LLGAGAALVAVLVALLLWSRQP 48 (545)
T ss_pred HHHHHHHHHHHHHHHheecCCC
Confidence 5667888888888888888843
No 75
>PF07096 DUF1358: Protein of unknown function (DUF1358); InterPro: IPR009792 This family consists of several hypothetical eukaryotic proteins of around 125 residues in length. The function of this family is unknown.
Probab=21.27 E-value=40 Score=23.81 Aligned_cols=21 Identities=24% Similarity=0.249 Sum_probs=16.0
Q ss_pred HHHhHHHHhhhhhheeeeccC
Q 045567 29 ALTGFAFAGIIGYFVLYSKKK 49 (74)
Q Consensus 29 ai~G~~i~~~igY~VLY~kKK 49 (74)
+++|..+++..++.+.++|||
T Consensus 36 ~Va~~s~~aGF~~tl~~aKKk 56 (124)
T PF07096_consen 36 GVAGASALAGFGTTLALAKKK 56 (124)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 356677777788888888876
No 76
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=21.21 E-value=64 Score=23.55 Aligned_cols=19 Identities=21% Similarity=0.523 Sum_probs=14.3
Q ss_pred HHHhhhhhheeeeccCCCc
Q 045567 34 AFAGIIGYFVLYSKKKPEA 52 (74)
Q Consensus 34 ~i~~~igY~VLY~kKKPEa 52 (74)
+|+-.+-|||+|++..|.-
T Consensus 69 liillviffviy~re~~~~ 87 (150)
T PF06084_consen 69 LIILLVIFFVIYSREEEKN 87 (150)
T ss_pred HHHHHHHhheeEecccccc
Confidence 4556677999999987743
No 77
>PF01788 PsbJ: PsbJ; InterPro: IPR002682 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 PsbJ found in PSII. PsbJ is one of the most hydrophobic proteins in the thylakoid membrane, and is located in a gene cluster with PsbE, PsbF and PsbL (PsbEFJL). Both PsbJ and PsbL (IPR003372 from INTERPRO) are essential for proper assembly of the OEC. Mutations in PsbJ cause the light-harvesting antenna to remain detached from the PSII dimers []. In addition, both PsbJ and PsbL are involved in the unidirectional flow of electrons, where PsbJ regulates the forward electron flow from D2 (Qa) to the plastoquinone pool, and PsbL prevents the reduction of PSII by back electron flow from plastoquinol protecting PSII from photo-inactivation [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0009539 photosystem II reaction center, 0016020 membrane; PDB: 3A0H_J 3ARC_J 3A0B_J 3KZI_J 2AXT_J 3PRQ_J 4FBY_b 3BZ2_J 1S5L_j 3PRR_J ....
Probab=20.42 E-value=70 Score=18.97 Aligned_cols=17 Identities=29% Similarity=0.653 Sum_probs=13.8
Q ss_pred HHHHHhHHHHhhhhhhe
Q 045567 27 KMALTGFAFAGIIGYFV 43 (74)
Q Consensus 27 ~mai~G~~i~~~igY~V 43 (74)
--+++|+++++.+|-|.
T Consensus 13 Vgtv~G~~vi~lvglFf 29 (40)
T PF01788_consen 13 VGTVAGIAVIGLVGLFF 29 (40)
T ss_dssp HHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHhe
Confidence 44688999999999775
No 78
>PF06926 Rep_Org_C: Putative replisome organiser protein C-terminus; InterPro: IPR009696 This entry represents the C terminus (approximately 100 residues) of a putative replisome organiser protein in Lactococcus bacteriophages [].
Probab=20.40 E-value=37 Score=23.31 Aligned_cols=19 Identities=26% Similarity=0.566 Sum_probs=16.6
Q ss_pred HHHhhhhhheeeeccCCCc
Q 045567 34 AFAGIIGYFVLYSKKKPEA 52 (74)
Q Consensus 34 ~i~~~igY~VLY~kKKPEa 52 (74)
+++|+.-|+..|.+++|+-
T Consensus 40 aViGA~NY~~~Ykn~~~dD 58 (95)
T PF06926_consen 40 AVIGAKNYVQWYKNENPDD 58 (95)
T ss_pred HHHhHHHHHHHHHHcCCCC
Confidence 4678999999999999964
No 79
>PF15378 DUF4605: Domain of unknown function (DUF4605)
Probab=20.08 E-value=78 Score=19.89 Aligned_cols=19 Identities=21% Similarity=0.737 Sum_probs=14.8
Q ss_pred HHhHHHHhhhhhheeeecc
Q 045567 30 LTGFAFAGIIGYFVLYSKK 48 (74)
Q Consensus 30 i~G~~i~~~igY~VLY~kK 48 (74)
+=|++++|++-++.-|+.|
T Consensus 42 ~~glllv~~lc~v~~~~q~ 60 (60)
T PF15378_consen 42 IRGLLLVGLLCFVIQYSQQ 60 (60)
T ss_pred HHHHHHHHHHHheEeeecC
Confidence 4588899999888877754
Done!