Query psy7549
Match_columns 104
No_of_seqs 107 out of 369
Neff 5.1
Searched_HMMs 46136
Date Fri Aug 16 21:12:47 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy7549.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/7549hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3385|consensus 99.9 3.3E-23 7E-28 146.3 6.5 91 1-93 2-98 (118)
2 PF05739 SNARE: SNARE domain; 99.4 1.5E-12 3.3E-17 80.5 7.7 62 26-88 1-62 (63)
3 KOG3202|consensus 99.4 1.8E-12 3.8E-17 100.9 7.9 67 22-89 145-211 (235)
4 cd00193 t_SNARE Soluble NSF (N 99.1 3.1E-10 6.7E-15 68.2 6.3 58 25-83 2-59 (60)
5 smart00397 t_SNARE Helical reg 99.0 3.1E-09 6.7E-14 64.6 6.8 62 21-83 4-65 (66)
6 KOG3065|consensus 98.5 4.4E-07 9.6E-12 72.1 8.2 63 21-84 210-272 (273)
7 PF09753 Use1: Membrane fusion 96.9 0.0059 1.3E-07 47.1 8.1 68 25-93 163-230 (251)
8 PF12352 V-SNARE_C: Snare regi 95.5 0.15 3.2E-06 31.5 7.4 64 22-87 2-65 (66)
9 KOG0810|consensus 94.6 0.18 3.9E-06 40.7 7.3 61 22-84 200-260 (297)
10 KOG0811|consensus 92.2 0.71 1.5E-05 36.9 7.0 58 28-86 179-236 (269)
11 COG5325 t-SNARE complex subuni 91.6 0.75 1.6E-05 37.2 6.5 62 23-85 189-250 (283)
12 KOG2678|consensus 89.0 1.7 3.8E-05 34.4 6.4 68 29-97 155-222 (244)
13 PF07889 DUF1664: Protein of u 89.0 3.1 6.8E-05 29.8 7.3 59 26-85 65-123 (126)
14 PF03908 Sec20: Sec20; InterP 89.0 3.3 7.2E-05 27.3 7.0 58 43-101 22-81 (92)
15 COG5074 t-SNARE complex subuni 84.5 4 8.6E-05 32.8 6.3 69 30-99 186-258 (280)
16 PF01519 DUF16: Protein of unk 79.5 11 0.00023 26.4 6.2 44 30-74 54-97 (102)
17 PF04102 SlyX: SlyX; InterPro 79.3 12 0.00026 23.6 6.1 49 28-77 3-51 (69)
18 PRK00846 hypothetical protein; 78.2 15 0.00033 24.3 6.4 51 26-77 10-60 (77)
19 KOG0809|consensus 77.4 9.2 0.0002 31.3 6.2 57 28-85 217-273 (305)
20 KOG0812|consensus 71.5 21 0.00045 29.4 6.9 68 30-98 228-296 (311)
21 PF04728 LPP: Lipoprotein leuc 69.9 24 0.00053 22.1 5.7 36 29-65 17-52 (56)
22 PRK00736 hypothetical protein; 69.8 26 0.00055 22.3 6.0 47 29-76 5-51 (68)
23 PRK01770 sec-independent trans 64.1 47 0.001 25.0 7.1 56 29-86 27-90 (171)
24 cd00179 SynN Syntaxin N-termin 63.5 43 0.00094 23.0 6.5 59 27-86 11-69 (151)
25 PRK04654 sec-independent trans 63.5 47 0.001 26.0 7.2 56 29-86 27-89 (214)
26 PF05957 DUF883: Bacterial pro 62.7 40 0.00087 22.0 8.5 65 22-86 2-70 (94)
27 PF11902 DUF3422: Protein of u 62.7 37 0.00081 28.7 7.0 69 28-101 311-380 (420)
28 PRK04325 hypothetical protein; 62.2 40 0.00086 21.7 6.1 47 29-76 9-55 (74)
29 PRK00295 hypothetical protein; 62.0 38 0.00082 21.5 6.0 47 29-76 5-51 (68)
30 PRK04406 hypothetical protein; 60.2 44 0.00096 21.6 6.0 47 28-75 10-56 (75)
31 PRK09973 putative outer membra 58.8 44 0.00095 22.6 5.5 35 29-64 38-72 (85)
32 PF07889 DUF1664: Protein of u 57.1 56 0.0012 23.4 6.2 52 30-82 51-106 (126)
33 PRK02119 hypothetical protein; 57.1 50 0.0011 21.2 6.3 47 28-75 8-54 (73)
34 PF12718 Tropomyosin_1: Tropom 55.9 73 0.0016 22.8 7.0 57 30-87 15-71 (143)
35 PF01519 DUF16: Protein of unk 55.4 69 0.0015 22.4 7.5 51 33-84 50-100 (102)
36 KOG2991|consensus 55.0 1.1E+02 0.0023 25.2 8.1 65 21-86 220-299 (330)
37 PRK02793 phi X174 lysis protei 55.0 54 0.0012 21.0 6.3 47 28-75 7-53 (72)
38 PF05531 NPV_P10: Nucleopolyhe 53.5 36 0.00079 22.4 4.4 47 28-75 17-66 (75)
39 PF14523 Syntaxin_2: Syntaxin- 52.9 55 0.0012 21.1 5.3 55 30-86 4-58 (102)
40 PF04728 LPP: Lipoprotein leuc 51.4 59 0.0013 20.3 6.6 50 29-86 3-52 (56)
41 PF08614 ATG16: Autophagy prot 51.2 97 0.0021 22.8 7.6 57 27-84 114-170 (194)
42 PRK01371 sec-independent trans 50.7 48 0.001 24.2 5.0 48 29-76 27-93 (137)
43 smart00503 SynN Syntaxin N-ter 49.0 72 0.0016 20.7 6.4 59 26-85 12-70 (117)
44 PF04880 NUDE_C: NUDE protein, 47.5 12 0.00027 27.9 1.6 36 21-57 17-52 (166)
45 PF09824 ArsR: ArsR transcript 47.2 8.2 0.00018 28.9 0.6 50 39-89 104-153 (160)
46 cd06845 Bcl-2_like Apoptosis r 45.9 73 0.0016 22.2 5.3 47 47-93 41-89 (144)
47 PRK10604 sensor protein RstB; 44.5 1.1E+02 0.0025 24.5 6.9 50 5-54 175-225 (433)
48 PF08651 DASH_Duo1: DASH compl 43.7 43 0.00093 21.9 3.6 32 59-90 9-40 (78)
49 PRK10884 SH3 domain-containing 43.2 1.5E+02 0.0032 22.7 7.7 61 21-82 96-156 (206)
50 PF14227 UBN2_2: gag-polypepti 42.8 29 0.00063 23.0 2.7 46 29-76 43-88 (119)
51 PRK09973 putative outer membra 41.9 1.1E+02 0.0023 20.7 5.3 46 30-76 25-70 (85)
52 smart00337 BCL BCL (B-Cell lym 40.9 56 0.0012 21.7 3.9 47 47-93 3-51 (100)
53 TIGR03752 conj_TIGR03752 integ 40.8 1.2E+02 0.0026 26.4 6.7 66 21-86 76-144 (472)
54 PRK04098 sec-independent trans 39.3 1.6E+02 0.0035 21.9 6.5 51 29-81 27-77 (158)
55 PF00261 Tropomyosin: Tropomyo 38.0 1.5E+02 0.0032 22.6 6.3 57 30-87 16-72 (237)
56 COG4949 Uncharacterized membra 37.5 75 0.0016 26.8 4.8 70 28-102 311-381 (424)
57 PF00015 MCPsignal: Methyl-acc 36.8 1.5E+02 0.0033 20.9 7.0 30 48-78 119-148 (213)
58 PF02646 RmuC: RmuC family; I 36.4 1.8E+02 0.004 23.1 6.8 49 34-83 231-279 (304)
59 PF08518 GIT_SHD: Spa2 homolog 35.9 46 0.001 18.4 2.4 17 39-55 11-27 (31)
60 PF08372 PRT_C: Plant phosphor 35.8 62 0.0013 23.9 3.8 48 21-76 39-91 (156)
61 smart00502 BBC B-Box C-termina 35.7 1.2E+02 0.0026 19.5 6.9 25 59-83 62-86 (127)
62 KOG3208|consensus 34.8 2.3E+02 0.005 22.5 7.1 75 8-85 130-204 (231)
63 PF14712 Snapin_Pallidin: Snap 34.5 1.3E+02 0.0027 19.3 6.3 25 60-84 66-90 (92)
64 PF08181 DegQ: DegQ (SacQ) fam 34.3 1.1E+02 0.0023 18.3 4.1 32 37-69 5-36 (46)
65 PRK10807 paraquat-inducible pr 33.9 1.9E+02 0.0042 25.1 7.0 19 8-26 403-421 (547)
66 COG2900 SlyX Uncharacterized p 33.5 1.4E+02 0.0031 19.6 6.1 46 25-71 4-49 (72)
67 PF10372 YojJ: Bacterial membr 32.6 63 0.0014 21.0 3.0 23 74-103 47-69 (70)
68 PF04740 LXG: LXG domain of WX 32.4 1.9E+02 0.0042 20.8 6.1 63 21-84 98-164 (204)
69 PF05791 Bacillus_HBL: Bacillu 32.2 2.1E+02 0.0045 21.1 7.5 62 28-90 102-163 (184)
70 PF11166 DUF2951: Protein of u 31.9 1.8E+02 0.0038 20.2 5.6 45 25-70 7-51 (98)
71 PF04912 Dynamitin: Dynamitin 31.8 2.5E+02 0.0054 22.9 7.0 47 35-82 335-381 (388)
72 PRK15396 murein lipoprotein; P 31.8 1.5E+02 0.0033 19.5 5.7 33 31-64 41-73 (78)
73 KOG1853|consensus 31.8 1.1E+02 0.0023 25.2 4.7 36 21-57 150-185 (333)
74 PF07097 DUF1359: Protein of u 31.4 1.4E+02 0.003 20.7 4.6 36 28-64 8-43 (102)
75 PF07326 DUF1466: Protein of u 31.4 33 0.00071 27.2 1.8 44 4-52 181-224 (233)
76 PRK00708 sec-independent trans 30.9 2.6E+02 0.0055 21.8 7.5 56 29-85 27-89 (209)
77 PF06661 VirE3: VirE3; InterP 30.8 53 0.0012 27.0 2.9 47 41-88 220-266 (317)
78 PRK00404 tatB sec-independent 30.4 1.7E+02 0.0036 21.5 5.2 40 29-70 27-66 (141)
79 PRK11637 AmiB activator; Provi 30.3 3.1E+02 0.0067 22.5 8.2 27 51-78 97-123 (428)
80 PF11315 Med30: Mediator compl 29.7 2.1E+02 0.0046 21.1 5.7 40 20-60 106-145 (150)
81 PF10805 DUF2730: Protein of u 28.0 2E+02 0.0042 19.5 7.5 55 30-85 36-92 (106)
82 KOG3894|consensus 27.5 3.6E+02 0.0078 22.4 7.5 69 21-90 214-292 (316)
83 PRK15048 methyl-accepting chem 27.3 3.7E+02 0.008 22.5 8.5 45 6-50 232-277 (553)
84 KOG0860|consensus 27.2 2.3E+02 0.0051 20.1 6.7 21 21-41 32-52 (116)
85 PF01213 CAP_N: Adenylate cycl 26.9 1.9E+02 0.0041 23.6 5.5 29 32-61 51-79 (312)
86 KOG3650|consensus 25.3 1.8E+02 0.0038 20.6 4.4 16 52-69 66-81 (120)
87 PF02970 TBCA: Tubulin binding 24.6 2.1E+02 0.0047 18.8 6.2 57 31-89 23-79 (90)
88 TIGR02132 phaR_Bmeg polyhydrox 24.4 3.3E+02 0.0072 21.0 6.7 58 28-86 78-135 (189)
89 PF10267 Tmemb_cc2: Predicted 24.4 2.9E+02 0.0062 23.4 6.2 57 20-76 260-316 (395)
90 PF05008 V-SNARE: Vesicle tran 24.2 1.8E+02 0.004 17.9 5.4 41 30-71 4-52 (79)
91 PF03670 UPF0184: Uncharacteri 24.1 2E+02 0.0044 19.3 4.3 35 51-86 27-61 (83)
92 PF00429 TLV_coat: ENV polypro 24.1 2.1E+02 0.0046 25.0 5.6 64 37-101 422-486 (561)
93 KOG1151|consensus 24.0 1.9E+02 0.0041 26.1 5.2 66 36-102 247-315 (775)
94 PF05377 FlaC_arch: Flagella a 23.4 2E+02 0.0042 17.9 5.3 13 32-44 3-15 (55)
95 PF05565 Sipho_Gp157: Siphovir 23.3 2.9E+02 0.0063 19.9 6.4 58 23-81 34-91 (162)
96 COG4942 Membrane-bound metallo 23.0 4.9E+02 0.011 22.4 8.1 58 25-83 41-98 (420)
97 PF00452 Bcl-2: Apoptosis regu 22.9 1.5E+02 0.0032 19.0 3.5 37 47-83 3-40 (101)
98 PF05082 Rop-like: Rop-like; 22.8 2.2E+02 0.0048 18.3 4.2 25 30-54 3-27 (66)
99 TIGR00383 corA magnesium Mg(2+ 22.5 3.7E+02 0.0079 20.7 6.7 16 70-85 250-265 (318)
100 PRK13842 conjugal transfer pro 22.3 3.9E+02 0.0084 21.5 6.4 26 28-53 54-79 (267)
101 PF05791 Bacillus_HBL: Bacillu 22.3 3.2E+02 0.007 20.1 6.4 48 28-76 134-181 (184)
102 PF00509 Hemagglutinin: Haemag 21.4 3.4E+02 0.0073 24.2 6.2 64 28-101 402-467 (550)
103 COG0422 ThiC Thiamine biosynth 21.2 37 0.0008 29.1 0.4 81 6-103 222-328 (432)
104 TIGR01386 cztS_silS_copS heavy 21.2 3.9E+02 0.0084 20.8 6.1 33 21-53 221-253 (457)
105 TIGR00190 thiC thiamine biosyn 20.9 37 0.00081 29.1 0.4 82 6-104 221-328 (423)
106 PF02315 MDH: Methanol dehydro 20.7 32 0.0007 23.6 -0.0 7 6-12 46-52 (93)
107 PF04100 Vps53_N: Vps53-like, 20.5 2.7E+02 0.0059 23.0 5.3 67 13-84 10-76 (383)
108 PRK13352 thiamine biosynthesis 20.3 38 0.00083 29.1 0.3 82 6-104 224-331 (431)
109 PRK10132 hypothetical protein; 20.0 3.1E+02 0.0067 18.9 6.2 56 20-75 7-62 (108)
No 1
>KOG3385|consensus
Probab=99.88 E-value=3.3e-23 Score=146.25 Aligned_cols=91 Identities=37% Similarity=0.527 Sum_probs=78.3
Q ss_pred CCcCCCCCCCCC----CCCCCCC--cchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccch
Q psy7549 1 MRRQHAGNYYEP----VPNQFDG--GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFL 74 (104)
Q Consensus 1 ~~~~~~~~~~~~----~p~~~~~--~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L 74 (104)
|+|.+++++-+| ....+|+ .+.+|+|||+.++.|..||.+||.|+++||+||+.||+ +||.|+++||++.++|
T Consensus 2 ~~R~g~~dg~~~l~~~~~~a~ss~~~~~le~ENee~~e~L~~kV~aLKsLs~dIg~Ev~~qnk-lld~mdddfdsts~~L 80 (118)
T KOG3385|consen 2 GSRFGLFDGSNGLEDGVSRASSSSHLASLERENEEAAESLQQKVKALKSLSLDIGDEVRTQNK-LLDGMDDDFDSTSGFL 80 (118)
T ss_pred CcccCcccCCCcccccccccCchhhHHHHHhhhHHHHHHHHHHHHHHHHHHHHhccccchHHH-HHHHhccchhhhHHHH
Confidence 678888777555 2222222 38888999999999999999999999999999999999 9999999999999999
Q ss_pred HHHHHHHHHHHHhcCCchh
Q psy7549 75 NNSMARVVLDIEKIKNPNI 93 (104)
Q Consensus 75 ~~t~~Rl~~m~~~~~n~~~ 93 (104)
++||.|++.|+++ +++.+
T Consensus 81 ~gtm~r~~~~ar~-sg~~l 98 (118)
T KOG3385|consen 81 SGTMGRLKTMARR-SGISL 98 (118)
T ss_pred HHHHHHHHHHHhc-CCcch
Confidence 9999999999998 55444
No 2
>PF05739 SNARE: SNARE domain; InterPro: IPR000727 The process of vesicular fusion with target membranes depends on a set of SNAREs (SNAP-Receptors), which are associated with the fusing membranes [, ]. Target SNAREs (t-SNAREs) are localised on the target membrane and belong to two different families, the syntaxin-like family and the SNAP-25 like family. One member of each family, together with a v-SNARE localised on the vesicular membrane, are required for fusion. The Syntaxins are type-I transmembrane proteins that contain several regions with coiled-coil propensity in their cytosolic part, the SNARE motif. SNAP-25 (IPR000928 from INTERPRO) is a protein consisting of two coiled-coil regions, which is associated with the membrane by lipid anchors. SNARE motifs assemble into parallel four helix bundles stabilised by the burial of these hydrophobic helix faces in the bundle core. Monomeric SNARE motifs are disordered so this assembly reaction is accompanied by a dramatic increase in alpha-helical secondary structure []. The parallel arrangement of SNARE motifs within complexes bring the transmembrane anchors, and the two membranes, into close proximity. Recently, it was shown that the two coiled-coil regions of SNAP-25 and one of the coiled-coil regions of the syntaxins are related []. This domain is found in both Syntaxin and SNAP-25 families as well as in other proteins.; GO: 0005515 protein binding; PDB: 1URQ_B 3RL0_R 1HVV_B 1SFC_B 1N7S_B 3IPD_B 3C98_B 3HD7_F 3RK2_B 1KIL_B ....
Probab=99.41 E-value=1.5e-12 Score=80.49 Aligned_cols=62 Identities=31% Similarity=0.454 Sum_probs=58.8
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhc
Q psy7549 26 ENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKI 88 (104)
Q Consensus 26 qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~ 88 (104)
|+|+.++.|+..|..||+++.+|++||++|+. +||.+++.|+++...|..+.++|.++.+..
T Consensus 1 e~d~~l~~l~~~i~~l~~~~~~i~~ev~~Q~~-~ld~i~~~vd~~~~~l~~~~~~l~ka~~~~ 62 (63)
T PF05739_consen 1 ERDEELDELEQSIQELKQMFQDIGEEVEEQNE-MLDRIEDNVDRANENLKKGNKKLKKALKYQ 62 (63)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ChHHHHHHHHHHHHHHHHHHHHHHHHHHHCHh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 45779999999999999999999999999999 999999999999999999999999998754
No 3
>KOG3202|consensus
Probab=99.37 E-value=1.8e-12 Score=100.92 Aligned_cols=67 Identities=27% Similarity=0.409 Sum_probs=61.6
Q ss_pred hHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcC
Q psy7549 22 AIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIK 89 (104)
Q Consensus 22 ~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~ 89 (104)
.|-+|.|+.+|.|++.|++||++|..||+|++.|+. |||+|+++||+|.++|.+.++++.+|.+..+
T Consensus 145 qm~~eQDe~Ld~ls~ti~rlk~~a~~~g~EL~~Q~~-llDdl~~e~d~t~srl~~~~~~l~~v~~~~s 211 (235)
T KOG3202|consen 145 QMLQEQDEGLDGLSATVQRLKGMALAMGEELEEQGR-LLDDLDNEMDRTESRLDRVMKRLAKVNRMAS 211 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 444455889999999999999999999999999999 9999999999999999999999999998544
No 4
>cd00193 t_SNARE Soluble NSF (N-ethylmaleimide-sensitive fusion protein)-Attachment protein (SNAP) REceptor domain; these alpha-helical motifs form twisted and parallel heterotetrameric helix bundles; the core complex contains one helix from a protein that is anchored in the vesicle membrane (synaptobrevin), one helix from a protein of the target membrane (syntaxin), and two helices from another protein anchored in the target membrane (SNAP-25); their interaction forms a core which is composed of a polar zero layer, a flanking leucine-zipper layer acts as a water tight shield to isolate ionic interactions in the zero layer from the surrounding solvent
Probab=99.11 E-value=3.1e-10 Score=68.23 Aligned_cols=58 Identities=31% Similarity=0.444 Sum_probs=54.8
Q ss_pred HhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH
Q psy7549 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL 83 (104)
Q Consensus 25 ~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~ 83 (104)
++++..++.|+..|..|++++.+|+.||..|+. +||.+++.++.+...++.+.+++.+
T Consensus 2 ~e~~~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~-~ld~i~~~~~~~~~~~~~~~~~l~k 59 (60)
T cd00193 2 QERDEELEQLEASIGELKQIFLDLGTEVEEQGE-LLDRIEDNVDNADVNVKRANKRLKK 59 (60)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455778999999999999999999999999999 9999999999999999999999875
No 5
>smart00397 t_SNARE Helical region found in SNAREs. All alpha-helical motifs that form twisted and parallel four-helix bundles in target soluble N-ethylmaleimide-sensitive factor (NSF) attachment protein (SNAP) receptor proteins. This motif found in "Q-SNAREs".
Probab=98.97 E-value=3.1e-09 Score=64.64 Aligned_cols=62 Identities=27% Similarity=0.427 Sum_probs=57.0
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL 83 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~ 83 (104)
..+.++.+..++.|+..|..+|+++.+|+.||..|+. +||.+++.++.+...++.+.+++.+
T Consensus 4 ~~~~~~~~~~l~~l~~~i~~l~~l~~~i~~~v~~Q~~-~ld~i~~~~d~~~~~~~~~~~~l~~ 65 (66)
T smart00397 4 DQMEEERDEELEQLEKSIGELKQIFLDMGTELEEQGE-QLDRIEDNVDDADVNLKKANKRLKK 65 (66)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHHHHHHHHHHHHHHhc
Confidence 3455666889999999999999999999999999999 9999999999999999999999875
No 6
>KOG3065|consensus
Probab=98.53 E-value=4.4e-07 Score=72.13 Aligned_cols=63 Identities=25% Similarity=0.344 Sum_probs=60.2
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
...|.|-|+-|++|+.-+.+||.|++++|.||+.||. .||.+.+..|+....|..+.+|+.++
T Consensus 210 ~~~edeiD~NL~qis~~lg~LK~mA~dmg~Eie~Qn~-~Ld~I~~k~d~~d~~v~~~n~R~~kL 272 (273)
T KOG3065|consen 210 PAAEDEIDENLDQLSAILGRLKNMALDMGSEIESQNE-RLDRIEDKVDRLDLRVDKANKRAKKL 272 (273)
T ss_pred ChhhhHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhH-HHhHHHHHHHhhhhHHHHHHHHHHhc
Confidence 6778888999999999999999999999999999999 99999999999999999999999876
No 7
>PF09753 Use1: Membrane fusion protein Use1; InterPro: IPR019150 This entry represents a family of proteins, approximately 300 residues in length, involved in vesicle transport. They have a single C-terminal transmembrane domain and a SNARE [soluble NSF (N-ethylmaleimide-sensitive fusion protein) attachment protein receptor] domain of approximately 60 residues. The SNARE domains are essential for membrane fusion and are conserved from yeasts to humans. Use1 is one of the three protein subunits that make up the SNARE complex and it is specifically required for Golgi-endoplasmic reticulum retrograde transport [].
Probab=96.93 E-value=0.0059 Score=47.12 Aligned_cols=68 Identities=19% Similarity=0.186 Sum_probs=62.0
Q ss_pred HhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCCchh
Q psy7549 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKNPNI 93 (104)
Q Consensus 25 ~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~ 93 (104)
...|.+.++|..=.+.||+-+..+++=+++.+. .|+......|+....|+....|+....+++.++++
T Consensus 163 ~~QE~L~~em~~La~~LK~~s~~~~~~l~~D~~-~L~~~~~~~d~n~~~l~~~~~rl~~~~~~~~~~~~ 230 (251)
T PF09753_consen 163 NLQEDLTEEMLSLARQLKENSLAFSQILKEDNK-VLDRTEEGLDRNLSSLKRESKRLKEHSSKSWGCWT 230 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHH
Confidence 344668899999999999999999999999999 99999999999999999999999999987777555
No 8
>PF12352 V-SNARE_C: Snare region anchored in the vesicle membrane C-terminus; PDB: 1GL2_C 2NPS_C.
Probab=95.53 E-value=0.15 Score=31.50 Aligned_cols=64 Identities=13% Similarity=0.119 Sum_probs=54.3
Q ss_pred hHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHh
Q psy7549 22 AIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEK 87 (104)
Q Consensus 22 ~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~ 87 (104)
.|..+++ .++.=...+.-.-++|.+|-.++..|++ .|......++.+...|..+-+-|.+|.+.
T Consensus 2 ~l~~e~~-~L~~s~~~~~e~~~~g~~~l~~L~~Qre-~L~~~~~kl~~i~~~l~~s~~~l~~I~rR 65 (66)
T PF12352_consen 2 RLLRESD-SLQRSHRMADETEEIGAATLEDLRSQRE-QLKRVRDKLDDIDSNLPKSNSLLKRISRR 65 (66)
T ss_dssp HHHHHHC-HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHhhHHHHHHHHHHcc
Confidence 3555655 5567777788888999999999999999 99999999999999999998888888764
No 9
>KOG0810|consensus
Probab=94.60 E-value=0.18 Score=40.73 Aligned_cols=61 Identities=15% Similarity=0.355 Sum_probs=53.9
Q ss_pred hHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 22 AIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 22 ~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
.+++.-+ .+-.|...+.-|.+|..+|-..|..|.+ ++|.+...+.++..-+..+...+.+.
T Consensus 200 Eiq~Rh~-~ik~LEksi~ELhqlFlDMa~LVe~QgE-mvd~IE~nV~~A~~~V~~g~~~~~kA 260 (297)
T KOG0810|consen 200 EIQERHD-EIKKLEKSIRELHQLFLDMAVLVESQGE-MVDRIENNVENAVDYVEQGVDHLKKA 260 (297)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHh-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444444 4578999999999999999999999999 99999999999999999999999963
No 10
>KOG0811|consensus
Probab=92.23 E-value=0.71 Score=36.91 Aligned_cols=58 Identities=17% Similarity=0.267 Sum_probs=54.1
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
++.+..|...|.-+-+|..+++.=|.+|.. +.|++++..+++...+..+...|.+.++
T Consensus 179 ~q~I~~lE~dI~dvN~IFkdL~~lV~eQG~-~VDsIe~nve~a~~nveqg~~~L~kA~~ 236 (269)
T KOG0811|consen 179 EQAIEQLEADIIDVNEIFKDLGSLVHEQGE-LVDSIEANVENASVNVEQGTENLRKAAK 236 (269)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-HHhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456788999999999999999999999999 9999999999999999999999999874
No 11
>COG5325 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=91.64 E-value=0.75 Score=37.21 Aligned_cols=62 Identities=23% Similarity=0.274 Sum_probs=57.2
Q ss_pred HHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 23 IHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 23 lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
|-.|-++.+..|..-|.-|-.|..+++.=|.+|.. +.|.++--.+.+..-++++-+-|.+..
T Consensus 189 l~~er~~eI~~l~~gI~Eln~IF~dL~~lV~eQG~-lVdrID~Ni~~t~~n~k~A~kEL~kA~ 250 (283)
T COG5325 189 LITERDEEIKNLARGIYELNEIFRDLGSLVGEQGE-LVDRIDFNIENTSDNLKNANKELEKAP 250 (283)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh-hhhHHhhhhhhhhHHHHhhHHHHHHhH
Confidence 34455788999999999999999999999999999 999999999999999999999999966
No 12
>KOG2678|consensus
Probab=89.03 E-value=1.7 Score=34.39 Aligned_cols=68 Identities=16% Similarity=0.113 Sum_probs=59.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhc
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGL 97 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l 97 (104)
++.+.|..-++.||..+.+-++=+++.|+ .|.-+.-..|.....|+....|+.+-++++...|++.++
T Consensus 155 eLaesll~LArslKtnalAfqsalkeDnQ-vl~~~~k~~D~N~~~L~~~Serve~y~ksk~s~wf~~~m 222 (244)
T KOG2678|consen 155 ELAESLLKLARSLKTNALAFQSALKEDNQ-VLGAAEKGIDVNSQGLMDVSERVEKYDKSKLSYWFYITM 222 (244)
T ss_pred HHHHHHHHHHHHHHHhHHHHHHHHHhhHH-HHHHHHHHHhHHHHHHHhhhHHHHHHHHhhhhHHHHHHH
Confidence 36788888899999999999999999999 999999999999999999999999999888544554443
No 13
>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=88.99 E-value=3.1 Score=29.81 Aligned_cols=59 Identities=17% Similarity=0.165 Sum_probs=48.2
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 26 ENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 26 qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
+--..|+.|..|+..++.++..|.+||.+=.. -++.+.++++..+..+..-=.+|..+-
T Consensus 65 hLsqRId~vd~klDe~~ei~~~i~~eV~~v~~-dv~~i~~dv~~v~~~V~~Le~ki~~ie 123 (126)
T PF07889_consen 65 HLSQRIDRVDDKLDEQKEISKQIKDEVTEVRE-DVSQIGDDVDSVQQMVEGLEGKIDEIE 123 (126)
T ss_pred HHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 44567888999999999999999999988777 788899999988887777766666553
No 14
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=88.97 E-value=3.3 Score=27.28 Aligned_cols=58 Identities=12% Similarity=0.048 Sum_probs=44.6
Q ss_pred hhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHh--cCCchhhhhcceee
Q psy7549 43 SLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEK--IKNPNIDRGLQTYK 101 (104)
Q Consensus 43 ~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~--~~n~~~~~~l~~~~ 101 (104)
.-+..=-+++.+|+. -|..+++.++...+.|..+.+-+..+-+. ...+.+..+|.+|+
T Consensus 22 ~~s~~t~~~L~~Ss~-~L~~~~~e~~~~~~~l~~s~~ll~~l~r~~~~D~~li~~~~~~f~ 81 (92)
T PF03908_consen 22 ERSELTLQTLEESSA-TLRSTNDEYDGQSSLLKKSRKLLKKLERRDKTDRILIFFAFLFFL 81 (92)
T ss_pred HHHHHHHHHHHHhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 345556678899999 99999999999999999999999988744 34444555655553
No 15
>COG5074 t-SNARE complex subunit, syntaxin [Intracellular trafficking and secretion]
Probab=84.46 E-value=4 Score=32.82 Aligned_cols=69 Identities=13% Similarity=0.093 Sum_probs=54.2
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH----HhcCCchhhhhcce
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI----EKIKNPNIDRGLQT 99 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~----~~~~n~~~~~~l~~ 99 (104)
.+..|...|.-|-+|..+|..+|.+|.. +.|-++.+...++..+......+.+.. .+.++.+.-.|+|+
T Consensus 186 ~ikkiEkt~ael~qLfndm~~~V~eq~e-~Vd~I~~~~~~~~~n~~~g~~h~d~AvksaRaaRkkki~c~gI~~ 258 (280)
T COG5074 186 EIKKIEKTMAELTQLFNDMEELVIEQQE-NVDVIDKNVEDAQENVEQGVGHTDKAVKSARAARKKKIRCYGICF 258 (280)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhcc-hHHHHHhhHhhHHhhHHHhhhhHHHHHHHHHHHHhcceehhhhHH
Confidence 4567889999999999999999999999 999999998888887777777766643 23344455557664
No 16
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=79.52 E-value=11 Score=26.42 Aligned_cols=44 Identities=16% Similarity=0.129 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccch
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFL 74 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L 74 (104)
+++.|..+|..+=.-=.....|++.|.+ .|+.+...+.....+|
T Consensus 54 qI~kL~e~V~~QGEqIkel~~e~k~qgk-tL~~I~~~L~~inkRL 97 (102)
T PF01519_consen 54 QINKLTEKVDKQGEQIKELQVEQKAQGK-TLQLILKTLQSINKRL 97 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
Confidence 3444444444443333333444445555 5555555544444443
No 17
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=79.33 E-value=12 Score=23.62 Aligned_cols=49 Identities=12% Similarity=0.105 Sum_probs=40.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNS 77 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t 77 (104)
+..++.|..++.-+-..-..+.+.|-.|.. .||.|...+.....+|+..
T Consensus 3 e~Ri~~LE~~la~qe~~ie~Ln~~v~~Qq~-~I~~L~~~l~~L~~rl~~~ 51 (69)
T PF04102_consen 3 EERIEELEIKLAFQEDTIEELNDVVTEQQR-QIDRLQRQLRLLRERLREL 51 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHT----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHh
Confidence 457899999999999999999999999999 9999988888877777654
No 18
>PRK00846 hypothetical protein; Provisional
Probab=78.19 E-value=15 Score=24.27 Aligned_cols=51 Identities=6% Similarity=-0.071 Sum_probs=42.7
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHH
Q psy7549 26 ENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNS 77 (104)
Q Consensus 26 qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t 77 (104)
+-+..++.|..++.-+-..-...++.|-.|.. .++.|...+.....+|+..
T Consensus 10 ~le~Ri~~LE~rlAfQe~tIe~LN~~v~~qq~-~I~~L~~ql~~L~~rL~~~ 60 (77)
T PRK00846 10 ALEARLVELETRLSFQEQALTELSEALADARL-TGARNAELIRHLLEDLGKV 60 (77)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHh
Confidence 34568899999999999999999999999999 9998888877776666553
No 19
>KOG0809|consensus
Probab=77.39 E-value=9.2 Score=31.35 Aligned_cols=57 Identities=16% Similarity=0.192 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
++.+-.|...|.-|-+|..+++.=|-+|.. ++|-++=.++.+...+..+.+.|.+.-
T Consensus 217 E~EV~ql~~sI~dL~~if~DL~~lVvdQGt-vvDRIDyNvEqt~~~v~~a~keL~KAe 273 (305)
T KOG0809|consen 217 EKEVTQLVESIYDLNQIFKDLSALVVDQGT-VVDRIDYNVEQTQVRVEDALKELHKAE 273 (305)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcc-chhheecchhhhhhhHHhHHHHHHHHH
Confidence 556788999999999999999999999999 999999999999999999999999965
No 20
>KOG0812|consensus
Probab=71.51 E-value=21 Score=29.38 Aligned_cols=68 Identities=13% Similarity=0.177 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH-HhcCCchhhhhcc
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI-EKIKNPNIDRGLQ 98 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~-~~~~n~~~~~~l~ 98 (104)
.+..+.+.|+-|=+|...|-.=|.+|-+ ++--+++.+|.+...+.++..-|.+-. +=++|+|+++.+.
T Consensus 228 ~~q~IEstIsElG~IF~QLA~mVseQ~E-~i~RID~nv~ds~lnI~gA~~ellKy~e~vSSNRwLmvkiF 296 (311)
T KOG0812|consen 228 TMQNIESTISELGGIFQQLASMVSEQEE-TIQRIDDNVDDSDLNIEGAHSELLKYFERVSSNRWLMVKIF 296 (311)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcchhhhhhhHHHHHHHHHHHHHhccchHHHHHHH
Confidence 3456778888888999999999999999 999999999999999999999998866 5578899866543
No 21
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=69.93 E-value=24 Score=22.08 Aligned_cols=36 Identities=17% Similarity=0.208 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDD 65 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~ 65 (104)
..++.|++.|..++.=.....+|+..-|. =||++..
T Consensus 17 ~kvdqLs~dv~~lr~~v~~ak~EAaRAN~-RlDN~a~ 52 (56)
T PF04728_consen 17 SKVDQLSSDVNALRADVQAAKEEAARANQ-RLDNIAQ 52 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhHh
Confidence 34555666666666655666666666666 5665543
No 22
>PRK00736 hypothetical protein; Provisional
Probab=69.77 E-value=26 Score=22.26 Aligned_cols=47 Identities=9% Similarity=0.114 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
..++.|..+|.-+-..-..+.+.|-.|.+ .||.|...+.....+|+.
T Consensus 5 ~Ri~~LE~klafqe~tie~Ln~~v~~Qq~-~i~~L~~ql~~L~~rl~~ 51 (68)
T PRK00736 5 ERLTELEIRVAEQEKTIEELSDQLAEQWK-TVEQMRKKLDALTERFLS 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 46899999999999999999999999999 888887766665555543
No 23
>PRK01770 sec-independent translocase; Provisional
Probab=64.05 E-value=47 Score=25.00 Aligned_cols=56 Identities=20% Similarity=0.274 Sum_probs=40.9
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhh--------ccchHHHHHHHHHHHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRT--------GGFLNNSMARVVLDIE 86 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t--------~~~L~~t~~Rl~~m~~ 86 (104)
..+..|+.-|+.+|.+..++.+|+...-. ++++...+... ...|+.++..+.....
T Consensus 27 ~~~r~lg~~i~~~R~~~~~~k~e~~~E~~--~~El~~~l~~~~~~~~~~l~~el~~~~~e~~~~~~ 90 (171)
T PRK01770 27 VAVKTVAGWIRALRSLATTVQNELTQELK--LQELQDSLKKVEKASLTNLSPELKASVDELKQAAE 90 (171)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh--HHHHHHHHHHHHHhhHhhhhHHHHHHHHHHHHHHh
Confidence 45678999999999999999999999888 77776655443 3355566666655544
No 24
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=63.54 E-value=43 Score=22.98 Aligned_cols=59 Identities=10% Similarity=0.071 Sum_probs=41.9
Q ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 27 NEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 27 ND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
-...|..|...|..|..+-..++...+.... +=+.|++-.+.+....+.+..+|..+.+
T Consensus 11 I~~~i~~i~~~v~~l~~l~~~~~t~~~~~~~-~~~~l~~~~~~~~~~~~~ik~~lk~l~~ 69 (151)
T cd00179 11 IRGNIDKISEDVEELQKLHSQLLTAPDADPE-LKQELESLVQEIKKLAKEIKGKLKELEE 69 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCchHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456778888888888888888888773334 5667777777777777777666666554
No 25
>PRK04654 sec-independent translocase; Provisional
Probab=63.46 E-value=47 Score=25.98 Aligned_cols=56 Identities=9% Similarity=0.021 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHH-------HHhhccchHHHHHHHHHHHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDD-------FDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~-------fd~t~~~L~~t~~Rl~~m~~ 86 (104)
+....|+.-|+.+|....++.+|++++-. +++|... +..+...|++++..+..-++
T Consensus 27 e~aRtlGk~irk~R~~~~~vk~El~~El~--~~ELrk~l~~~~~~i~~~~~~lk~~~~el~q~a~ 89 (214)
T PRK04654 27 KAARFAGLWVRRARMQWDSVKQELERELE--AEELKRSLQDVQASLREAEDQLRNTQQQVEQGAR 89 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhh--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45678888999999999999998877766 4555554 44445555566666665444
No 26
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=62.74 E-value=40 Score=21.97 Aligned_cols=65 Identities=17% Similarity=0.174 Sum_probs=41.7
Q ss_pred hHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHh----hccchHHHHHHHHHHHH
Q psy7549 22 AIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDR----TGGFLNNSMARVVLDIE 86 (104)
Q Consensus 22 ~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~----t~~~L~~t~~Rl~~m~~ 86 (104)
.+.++-+..++.+..-++..+..+....+++++.-...++...+.... +..+.+.+...+...++
T Consensus 2 ~l~~~l~~l~~d~~~l~~~~~~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~V~ 70 (94)
T PF05957_consen 2 DLKAELEQLRADLEDLARSAADLAGEKADEARDRAEEALDDARDRAEDAADQAREQAREAAEQTEDYVR 70 (94)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466777888888888888888888888888887665455555444443 33333444444444444
No 27
>PF11902 DUF3422: Protein of unknown function (DUF3422); InterPro: IPR021830 This family of proteins are functionally uncharacterised. This protein is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 426 to 444 amino acids in length.
Probab=62.66 E-value=37 Score=28.74 Aligned_cols=69 Identities=23% Similarity=0.265 Sum_probs=49.7
Q ss_pred HHHHHHHHHHHHHHHhh-HHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhcceee
Q psy7549 28 EQLTSDLRNKIQALKSL-TIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYK 101 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~l-si~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~ 101 (104)
.+.++.|+.+|.+.=+| -..|.-+++.||..||.+|+.- .+.+-+|-.|...|..++=+ +| -.||+-|+
T Consensus 311 ~~R~~~Ls~rv~Ra~~LLRTrVdv~le~QN~~LL~SM~rR-a~lQLrLQqtVEGLSVvAIs---YY-~vgL~~y~ 380 (420)
T PF11902_consen 311 ERRQEDLSRRVARATDLLRTRVDVELEQQNQDLLASMDRR-ARLQLRLQQTVEGLSVVAIS---YY-VVGLLGYL 380 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhhhHHHHHHH---HH-HHHHHHHH
Confidence 34568888888887664 5678899999999888888765 35777888888888876641 22 24555554
No 28
>PRK04325 hypothetical protein; Provisional
Probab=62.16 E-value=40 Score=21.72 Aligned_cols=47 Identities=11% Similarity=0.099 Sum_probs=37.8
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
..++.|..+|.-+-..-..+.+.|-.|.. .|+.|...+.....+|+.
T Consensus 9 ~Ri~~LE~klAfQE~tIe~LN~vv~~Qq~-~I~~L~~ql~~L~~rl~~ 55 (74)
T PRK04325 9 DRITELEIQLAFQEDLIDGLNATVARQQQ-TLDLLQAQLRLLYQQMRD 55 (74)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 35899999999999999999999999999 888887666655554443
No 29
>PRK00295 hypothetical protein; Provisional
Probab=62.00 E-value=38 Score=21.45 Aligned_cols=47 Identities=4% Similarity=0.006 Sum_probs=38.0
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
..++.|..+|.-+-..-..+.+.|-.|.+ -||.|...+.....+|+.
T Consensus 5 ~Ri~~LE~kla~qE~tie~Ln~~v~~Qq~-~I~~L~~ql~~L~~rl~~ 51 (68)
T PRK00295 5 ERVTELESRQAFQDDTIQALNDVLVEQQR-VIERLQLQMAALIKRQEE 51 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 36889999999999999999999999998 888887776666555544
No 30
>PRK04406 hypothetical protein; Provisional
Probab=60.19 E-value=44 Score=21.65 Aligned_cols=47 Identities=17% Similarity=0.240 Sum_probs=38.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLN 75 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~ 75 (104)
+..++.|..++.-+-..--.+.+.|-.|.. .||.|...+.....+|+
T Consensus 10 e~Ri~~LE~~lAfQE~tIe~LN~~v~~Qq~-~I~~L~~ql~~L~~rl~ 56 (75)
T PRK04406 10 EERINDLECQLAFQEQTIEELNDALSQQQL-LITKMQDQMKYVVGKVK 56 (75)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999999 88888776666554443
No 31
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=58.76 E-value=44 Score=22.55 Aligned_cols=35 Identities=20% Similarity=0.243 Sum_probs=22.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhh
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMD 64 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~ 64 (104)
..+++|+..|+.+|.=...-.+|+..=|+ =||+++
T Consensus 38 ~kvdql~~dv~~a~aaa~aAk~EA~RAN~-RiDN~~ 72 (85)
T PRK09973 38 AKIARLEQDMKALRPQIYAAKSEANRANT-RLDAQD 72 (85)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhhhHH
Confidence 34556666666666666666667777777 666553
No 32
>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=57.10 E-value=56 Score=23.38 Aligned_cols=52 Identities=13% Similarity=0.174 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHH-hhHHHH---HHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHH
Q psy7549 30 LTSDLRNKIQALK-SLTIDI---GTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVV 82 (104)
Q Consensus 30 ~ld~L~~kV~~LK-~lsi~I---g~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~ 82 (104)
+|+.+++.++.-| +|+..| ..-+++|.+ +-..+.+++..++..+...-..+.
T Consensus 51 ql~~vs~~l~~tKkhLsqRId~vd~klDe~~e-i~~~i~~eV~~v~~dv~~i~~dv~ 106 (126)
T PF07889_consen 51 QLEQVSESLSSTKKHLSQRIDRVDDKLDEQKE-ISKQIKDEVTEVREDVSQIGDDVD 106 (126)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHH-HHHHHHHHHHHHHhhHHHHHHHHH
Confidence 4455555554443 455444 345666666 666666666665555554444433
No 33
>PRK02119 hypothetical protein; Provisional
Probab=57.07 E-value=50 Score=21.23 Aligned_cols=47 Identities=17% Similarity=0.167 Sum_probs=37.9
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLN 75 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~ 75 (104)
+..++.|..+|.-+-..-..+.+.|-.|.+ .||.|...+.....+|+
T Consensus 8 e~Ri~~LE~rla~QE~tie~LN~~v~~Qq~-~id~L~~ql~~L~~rl~ 54 (73)
T PRK02119 8 ENRIAELEMKIAFQENLLEELNQALIEQQF-VIDKMQVQLRYMANKLK 54 (73)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 457899999999999999999999999998 88887776665554443
No 34
>PF12718 Tropomyosin_1: Tropomyosin like; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].
Probab=55.86 E-value=73 Score=22.81 Aligned_cols=57 Identities=11% Similarity=0.199 Sum_probs=41.4
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHh
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEK 87 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~ 87 (104)
.++.+..+|..+.+-......||.+=+. =+..+..++|.+...|..+...+....+.
T Consensus 15 r~e~~e~~~K~le~~~~~~E~EI~sL~~-K~~~lE~eld~~~~~l~~~k~~lee~~~~ 71 (143)
T PF12718_consen 15 RAEELEAKVKQLEQENEQKEQEITSLQK-KNQQLEEELDKLEEQLKEAKEKLEESEKR 71 (143)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 4567777777777777777777777666 67777777777777777777777665543
No 35
>PF01519 DUF16: Protein of unknown function DUF16; InterPro: IPR002862 Proteins that contain this domain are of unknown function. It appears to be confined to proteins from Mycoplasma pneumoniae [].; PDB: 2BA2_C.
Probab=55.40 E-value=69 Score=22.36 Aligned_cols=51 Identities=12% Similarity=0.005 Sum_probs=34.3
Q ss_pred HHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 33 DLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 33 ~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
....+|..|=+.-..-|++|+.+.. =.+..+.+++.....|..--+||.+|
T Consensus 50 ~qgeqI~kL~e~V~~QGEqIkel~~-e~k~qgktL~~I~~~L~~inkRLD~~ 100 (102)
T PF01519_consen 50 AQGEQINKLTEKVDKQGEQIKELQV-EQKAQGKTLQLILKTLQSINKRLDKM 100 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 5555666666666666777777776 66667777777666676666676654
No 36
>KOG2991|consensus
Probab=55.03 E-value=1.1e+02 Score=25.20 Aligned_cols=65 Identities=17% Similarity=0.268 Sum_probs=48.1
Q ss_pred chHHHhhHHH--------HHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhcc-------chHHHHHHHHHHH
Q psy7549 21 DAIHQENEQL--------TSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGG-------FLNNSMARVVLDI 85 (104)
Q Consensus 21 ~~lE~qND~~--------ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~-------~L~~t~~Rl~~m~ 85 (104)
..|.+||+++ |-.|.-++..+|.-+..+..--++=+. .+..|++++++... .|+.+-+++.++.
T Consensus 220 R~L~qENeElG~q~s~Gria~Le~eLAmQKs~seElkssq~eL~d-fm~eLdedVEgmqsTiliLQq~Lketr~~Iq~l~ 298 (330)
T KOG2991|consen 220 RTLQQENEELGHQASEGRIAELEIELAMQKSQSEELKSSQEELYD-FMEELDEDVEGMQSTILILQQKLKETRKEIQRLK 298 (330)
T ss_pred HHHHHHHHHHHhhhhcccHHHHHHHHHHHHhhHHHHHHhHHHHHH-HHHHHHHHHhcchhhHHHHHHHHHHHHHHHHHHH
Confidence 6778888764 566778888888888766666666677 77788888888654 5777887777765
Q ss_pred H
Q psy7549 86 E 86 (104)
Q Consensus 86 ~ 86 (104)
+
T Consensus 299 k 299 (330)
T KOG2991|consen 299 K 299 (330)
T ss_pred H
Confidence 4
No 37
>PRK02793 phi X174 lysis protein; Provisional
Probab=54.96 E-value=54 Score=20.98 Aligned_cols=47 Identities=11% Similarity=0.116 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLN 75 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~ 75 (104)
+..+..|..+|.-+-..-..+.+.|-.|.. .|+.|...+.....+|+
T Consensus 7 e~Ri~~LE~~lafQe~tIe~Ln~~v~~Qq~-~I~~L~~~l~~L~~rl~ 53 (72)
T PRK02793 7 EARLAELESRLAFQEITIEELNVTVTAHEM-EMAKLRDHLRLLTEKLK 53 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHH
Confidence 457899999999999998889999999988 88777766655544443
No 38
>PF05531 NPV_P10: Nucleopolyhedrovirus P10 protein; InterPro: IPR008702 This family consists of several nucleopolyhedrovirus P10 proteins which are thought to be involved in the morphogenesis of the polyhedra [].; GO: 0019028 viral capsid
Probab=53.48 E-value=36 Score=22.45 Aligned_cols=47 Identities=17% Similarity=0.306 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHHhhHHH---HHHHHHHhhHHHHhhhhHHHHhhccchH
Q psy7549 28 EQLTSDLRNKIQALKSLTID---IGTEVKYQNEHLLRGMDDDFDRTGGFLN 75 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~---Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~ 75 (104)
+..+++|...|..++.-.-+ |.+-++.|.. -|+.++..+..-...|.
T Consensus 17 d~KVdaLq~~V~~l~~~~~~v~~l~~klDa~~~-~l~~l~~~V~~I~~iL~ 66 (75)
T PF05531_consen 17 DDKVDALQTQVDDLESNLPDVTELNKKLDAQSA-QLTTLNTKVNEIQDILN 66 (75)
T ss_pred HHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHH-HHHHHHHHHHHHHHHhC
Confidence 44667777777777765555 6666777777 77777777666555443
No 39
>PF14523 Syntaxin_2: Syntaxin-like protein; PDB: 2DNX_A.
Probab=52.89 E-value=55 Score=21.11 Aligned_cols=55 Identities=13% Similarity=0.149 Sum_probs=35.0
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
.|-.+...|+.|+.+...||.. ++... +-+.+..-...+...++.+-..|..+..
T Consensus 4 ~l~~in~~v~~l~k~~~~lGt~-~Ds~~-lR~~i~~~~~~~~~l~k~~~~~l~~l~~ 58 (102)
T PF14523_consen 4 NLFKINQNVSQLEKLVNQLGTP-RDSQE-LREKIHQLIQKTNQLIKEISELLKKLNS 58 (102)
T ss_dssp HHHHHHHHHHHHHHHHHHH-SS-S--HH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHhCCc-cccHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777777888777777754 34444 5666766667777766666666666554
No 40
>PF04728 LPP: Lipoprotein leucine-zipper; InterPro: IPR006817 This repeating sequence, NAKVDQLSNDV, is found in the enterobacterial outer membrane lipoprotein LPP. The outer membrane lipoprotein is the most abundant protein in an Escherichia coli cell. The messenger RNA for the lipoprotein of the E. coli outer membrane codes for a putative precursor, prolipoprotein, which has 20 additional amino acid residues extending from the amino terminus of the lipoprotein.; GO: 0019867 outer membrane; PDB: 1JCC_A 2GUV_C 2GUS_A 1JCD_A 1KFM_A 1T8Z_D 1KFN_A 1EQ7_A.
Probab=51.36 E-value=59 Score=20.35 Aligned_cols=50 Identities=14% Similarity=0.104 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
..++.|++.|+.|+.=--.|..||..-.. +...+..--.++..||..++.
T Consensus 3 akid~Ls~dVq~L~~kvdqLs~dv~~lr~--------~v~~ak~EAaRAN~RlDN~a~ 52 (56)
T PF04728_consen 3 AKIDQLSSDVQTLNSKVDQLSSDVNALRA--------DVQAAKEEAARANQRLDNIAQ 52 (56)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHhhHh
Confidence 35788888888887766666666554443 333444444555666666554
No 41
>PF08614 ATG16: Autophagy protein 16 (ATG16); InterPro: IPR013923 Macroautophagy is a bulk degradation process induced by starvation in eukaryotic cells. In yeast, 15 Apg proteins coordinate the formation of autophagosomes. No molecule involved in autophagy has yet been identified in higher eukaryotes []. The pre-autophagosomal structure contains at least five Apg proteins: Apg1p, Apg2p, Apg5p, Aut7p/Apg8p and Apg16p. It is found in the vacuole []. The C-terminal glycine of Apg12p is conjugated to a lysine residue of Apg5p via an isopeptide bond. During autophagy, cytoplasmic components are enclosed in autophagosomes and delivered to lysosomes/vacuoles. Auotphagy protein 16 (Apg16) has been shown to be bind to Apg5 and is required for the function of the Apg12p-Apg5p conjugate []. Autophagy protein 5 (Apg5) is directly required for the import of aminopeptidase I via the cytoplasm-to-vacuole targeting pathway []. This entry represents auotphagy protein 16 (Apg16), which is required for the function of the Apg12p-Apg5p conjugate.; PDB: 3A7O_D 3A7P_B.
Probab=51.16 E-value=97 Score=22.83 Aligned_cols=57 Identities=18% Similarity=0.161 Sum_probs=46.0
Q ss_pred hHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 27 NEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 27 ND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
....+..|...+..|+.--.+...|+++.+. .+..+.|.+....--+...-.++.++
T Consensus 114 ~~~~l~~l~~~~~~L~~~~~~l~~~l~ek~k-~~e~l~DE~~~L~l~~~~~e~k~~~l 170 (194)
T PF08614_consen 114 KERRLAELEAELAQLEEKIKDLEEELKEKNK-ANEILQDELQALQLQLNMLEEKLRKL 170 (194)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3557788888888888888899999999999 99999999888776666655555554
No 42
>PRK01371 sec-independent translocase; Provisional
Probab=50.69 E-value=48 Score=24.18 Aligned_cols=48 Identities=21% Similarity=0.368 Sum_probs=31.7
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhh-------------------HHHHhhhhHHHHhhccchHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQN-------------------EHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn-------------------~~lLD~l~~~fd~t~~~L~~ 76 (104)
+.+..|+..|+.+|..+.+..+|+++.- +|++|+++++++.....++.
T Consensus 27 ~~ar~lg~~ir~~R~~~~~ak~~i~~Elg~ef~d~d~r~l~Pr~~vrk~l~d~~~~~~~~~~~~~~~ 93 (137)
T PRK01371 27 KAARDAGRTLRQLREMANNARNDLRSELGPEFADLDLRDLNPKTFVRKHLLEDLDDDIDEIKLGLKT 93 (137)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhcchhcccchhhcCHHHHHHHHHhhcchhhhhhhhhhHHh
Confidence 4567788888888887666666655532 35777777777765554443
No 43
>smart00503 SynN Syntaxin N-terminal domain. Three-helix domain that (in Sso1p) slows the rate of its reaction with the SNAP-25 homologue Sec9p
Probab=49.03 E-value=72 Score=20.73 Aligned_cols=59 Identities=14% Similarity=0.094 Sum_probs=35.4
Q ss_pred hhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 26 ENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 26 qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
+-...|..|...|..|+.+-..++...+.... +=+.|+...+.+....+.+..+|..+.
T Consensus 12 ~I~~~I~~i~~~v~~l~~l~~~~l~~~~~~~~-~~~~l~~~~~~~~~~~~~i~~~lk~l~ 70 (117)
T smart00503 12 EIRANIQKISQNVAELQKLHEELLTPPDADKE-LREKLERLIDDIKRLAKEIRAKLKELE 70 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCchhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456777788888888888888766653233 334555555555555555555555444
No 44
>PF04880 NUDE_C: NUDE protein, C-terminal conserved region; InterPro: IPR006964 This domain represents the C-terminal conserved region of NUDE proteins. Emericella nidulans (Aspergillus nidulans) NUDE, acts in the cytoplasmic dynein/dynactin pathway and is required for distribution of nuclei []. It is a homologue of the nuclear distribution protein RO11 of Neurospora crassa. NUDE interacts with the NUDF via an N-terminal coiled coil domain; this is the only domain which is absolutely required for NUDE function.; PDB: 2V66_B 2V71_B.
Probab=47.54 E-value=12 Score=27.95 Aligned_cols=36 Identities=25% Similarity=0.351 Sum_probs=14.4
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNE 57 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~ 57 (104)
-.||+|-|+. +.|...|+|||.=..++..|+.-|.+
T Consensus 17 alLE~ELdEK-E~L~~~~QRLkDE~RDLKqEl~V~ek 52 (166)
T PF04880_consen 17 ALLESELDEK-ENLREEVQRLKDELRDLKQELIVQEK 52 (166)
T ss_dssp HHHHHHHHHH-HHHHHCH-------------------
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3689998865 89999999999999999999966666
No 45
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=47.15 E-value=8.2 Score=28.93 Aligned_cols=50 Identities=18% Similarity=0.122 Sum_probs=44.2
Q ss_pred HHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcC
Q psy7549 39 QALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIK 89 (104)
Q Consensus 39 ~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~ 89 (104)
.-|+.+...|..||+.-|. .|.++...|......|++..+|..++.=+|.
T Consensus 104 eel~~~~e~i~~~v~~Gn~-Sl~~lsr~l~~sp~firglAKRs~~L~VkGq 153 (160)
T PF09824_consen 104 EELRDYVEKIEKEVEAGNT-SLSDLSRKLGISPVFIRGLAKRSPKLDVKGQ 153 (160)
T ss_pred HHHHHHHHHHHHHHHcCCC-cHHHHHHHhCCCHHHHHHHHHhccCcceecc
Confidence 4688889999999999999 9999999999999999999999888765543
No 46
>cd06845 Bcl-2_like Apoptosis regulator proteins of the Bcl-2 family, named after B-cell lymphoma 2. This alignment model spans what have been described as Bcl-2 homology regions BH1, BH2, BH3, and BH4. Many members of this family have an additional C-terminal transmembrane segment. Some homologous proteins, which are not included in this model, may miss either the BH4 (Bax, Bak) or the BH2 (Bcl-X(S)) region, and some appear to only share the BH3 region (Bik, Bim, Bad, Bid, Egl-1). This family is involved in the regulation of the outer mitochondrial membrane's permeability and in promoting or preventing the release of apoptogenic factors, which in turn may trigger apoptosis by activating caspases. Bcl-2 and the closely related Bcl-X(L) are anti-apoptotic key regulators of programmed cell death. They are assumed to function via heterodimeric protein-protein interactions, binding pro-apoptotic proteins such as Bad (BCL2-antagonist of cell death), Bid, and Bim, by specifically interacting
Probab=45.93 E-value=73 Score=22.16 Aligned_cols=47 Identities=15% Similarity=0.115 Sum_probs=30.4
Q ss_pred HHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH-HHHh-cCCchh
Q psy7549 47 DIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL-DIEK-IKNPNI 93 (104)
Q Consensus 47 ~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~-m~~~-~~n~~~ 93 (104)
.|++|++.++.+++++|.+.+..+......++..+.+ +.+. +-||-.
T Consensus 41 ~~~dele~~~~~~f~~~~~~l~~~~~~~~~~f~~v~~~lf~dg~inWGR 89 (144)
T cd06845 41 RVGDELEEKHRRLFENMCRQLNISPDNAYEVFQEVARELFEDGGINWGR 89 (144)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHhccCCCChHH
Confidence 4566666666668888888887666666666666665 4455 344443
No 47
>PRK10604 sensor protein RstB; Provisional
Probab=44.49 E-value=1.1e+02 Score=24.50 Aligned_cols=50 Identities=16% Similarity=0.195 Sum_probs=34.3
Q ss_pred CCCCCCCCCCCCCCCc-chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHH
Q psy7549 5 HAGNYYEPVPNQFDGG-DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKY 54 (104)
Q Consensus 5 ~~~~~~~~~p~~~~~~-~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~ 54 (104)
+.|+.-.+++....++ ..|...-++..+.|...+...|++...|..|++.
T Consensus 175 ~~g~~~~~~~~~~~~el~~L~~~fn~m~~~l~~~~~~~~~l~~~vsHeLrt 225 (433)
T PRK10604 175 GDGHLAERIHFDEGSSLERLGVAFNQMADNINALIASKKQLIDGIAHELRT 225 (433)
T ss_pred hcCCCccccCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHhhcC
Confidence 4455555555433222 5566666778888888888889888888888774
No 48
>PF08651 DASH_Duo1: DASH complex subunit Duo1; InterPro: IPR013960 The DASH complex is a ~10 subunit microtubule-binding complex that is transferred to the kinetochore prior to mitosis []. In Saccharomyces cerevisiae (Baker's yeast) DASH forms both rings and spiral structures on microtubules in vitro [, ].
Probab=43.69 E-value=43 Score=21.92 Aligned_cols=32 Identities=13% Similarity=0.092 Sum_probs=18.5
Q ss_pred HHhhhhHHHHhhccchHHHHHHHHHHHHhcCC
Q psy7549 59 LLRGMDDDFDRTGGFLNNSMARVVLDIEKIKN 90 (104)
Q Consensus 59 lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n 90 (104)
-|+.++..|+.....|+++...+.++.++..+
T Consensus 9 ~Lr~IN~~ie~~~~~L~~a~~~~~~v~~~~~~ 40 (78)
T PF08651_consen 9 QLRKINPVIEGLIETLRSAKSNMNRVQETVES 40 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45555666666666666666666665555444
No 49
>PRK10884 SH3 domain-containing protein; Provisional
Probab=43.19 E-value=1.5e+02 Score=22.65 Aligned_cols=61 Identities=15% Similarity=0.230 Sum_probs=37.3
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVV 82 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~ 82 (104)
..+|.|..+.-+.|.+.-...++....+.+++...+. .+.+|...-+.....|..+..++.
T Consensus 96 p~le~el~~l~~~l~~~~~~~~~~~~~l~~~~~~~~~-~~~~L~~~n~~L~~~l~~~~~~~~ 156 (206)
T PRK10884 96 PDLENQVKTLTDKLNNIDNTWNQRTAEMQQKVAQSDS-VINGLKEENQKLKNQLIVAQKKVD 156 (206)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4466666655556666666666777777777666666 666666666555555555554443
No 50
>PF14227 UBN2_2: gag-polypeptide of LTR copia-type
Probab=42.79 E-value=29 Score=22.99 Aligned_cols=46 Identities=26% Similarity=0.281 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
.++..+...+..|+.++..|.+|..-. . +|..|-.+|+.....|..
T Consensus 43 ~hi~~~~~l~~~L~~~g~~i~d~~~~~-~-lL~sLP~sy~~~~~~l~~ 88 (119)
T PF14227_consen 43 DHINEFRSLVNQLKSLGVPIDDEDKVI-I-LLSSLPPSYDSFVTALLY 88 (119)
T ss_pred HHHHHHHHHHHhhccccccchHHHHHH-H-HHHcCCHhHHHHHHHHHc
Confidence 478899999999999999999996644 4 699999999887655433
No 51
>PRK09973 putative outer membrane lipoprotein; Provisional
Probab=41.88 E-value=1.1e+02 Score=20.67 Aligned_cols=46 Identities=13% Similarity=0.211 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
.++.|++.|+.|+.=.-.+..+|..-.. -.+.--++-.++..+|.+
T Consensus 25 kvdqLss~V~~L~~kvdql~~dv~~a~a-aa~aAk~EA~RAN~RiDN 70 (85)
T PRK09973 25 KVNQLASNVQTLNAKIARLEQDMKALRP-QIYAAKSEANRANTRLDA 70 (85)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHhhhh
Confidence 6789999999998888888888777666 555555555555555543
No 52
>smart00337 BCL BCL (B-Cell lymphoma); contains BH1, BH2 regions. (BH1, BH2, (BH3 (one helix only)) and not BH4(one helix only)). Involved in apoptosis regulation
Probab=40.92 E-value=56 Score=21.69 Aligned_cols=47 Identities=15% Similarity=0.106 Sum_probs=28.4
Q ss_pred HHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH-HHHhc-CCchh
Q psy7549 47 DIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL-DIEKI-KNPNI 93 (104)
Q Consensus 47 ~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~-m~~~~-~n~~~ 93 (104)
.|++|++....+++.+|....+-+...-..++..+.+ +.+.| -||-.
T Consensus 3 ~~~dele~~~~~~f~~~~~~l~~~~~~~~~~f~~Va~~lf~dg~inWGR 51 (100)
T smart00337 3 RVGDELNKRYERAFSSFSAQLHVTPGTAIELFGEVATELFSDGNINWGR 51 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHccCCCCHHH
Confidence 4667777766657888877766655555555555554 44555 34433
No 53
>TIGR03752 conj_TIGR03752 integrating conjugative element protein, PFL_4705 family. Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida toluene catabolic TOL 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=40.75 E-value=1.2e+02 Score=26.41 Aligned_cols=66 Identities=14% Similarity=0.214 Sum_probs=40.1
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhH---HHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNE---HLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~---~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
+.+++||+.+.++-..--.+...|...|.+.|+.-.. .-.+.|.+....+.+.|..-.+||..+..
T Consensus 76 ~~l~~~N~~l~~eN~~L~~r~~~id~~i~~av~~~~~~~~~~~~ql~~~~~~~~~~l~~l~~~l~~~~~ 144 (472)
T TIGR03752 76 AKLISENEALKAENERLQKREQSIDQQIQQAVQSETQELTKEIEQLKSERQQLQGLIDQLQRRLAGVLT 144 (472)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4566777766666665555666677777777754221 02345566666677777776777755443
No 54
>PRK04098 sec-independent translocase; Provisional
Probab=39.26 E-value=1.6e+02 Score=21.94 Aligned_cols=51 Identities=10% Similarity=0.140 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARV 81 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl 81 (104)
..+-.|+.-|+.+|....+..+++++.-. ++++.+.+......|..+...+
T Consensus 27 ~~~r~lGk~ir~~K~~~~~~k~~l~~Ei~--~~elk~e~~k~k~~l~~~~~~l 77 (158)
T PRK04098 27 QAMVDIAKFFKAVKKTINDAKSTLDKEIN--IEEIKEEALKYKKEFESAVESL 77 (158)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHh--hHHHHHHHHHHHHHHHHHHHHH
Confidence 35667778888888888887777777766 5666655555544444444433
No 55
>PF00261 Tropomyosin: Tropomyosin; InterPro: IPR000533 Tropomyosins [], are a family of closely related proteins present in muscle and non-muscle cells. In striated muscle, tropomyosin mediate the interactions between the troponin complex and actin so as to regulate muscle contraction []. The role of tropomyosin in smooth muscle and non-muscle tissues is not clear. Tropomyosin is an alpha-helical protein that forms a coiled-coil structure of 2 parallel helices containing 2 sets of 7 alternating actin binding sites []. There are multiple cell-specific isoforms, created by differential splicing of the messenger RNA from one gene, but the proportions of the isoforms vary between different cell types. Muscle isoforms of tropomyosin are characterised by having 284 amino acid residues and a highly conserved N-terminal region, whereas non-muscle forms are generally smaller and are heterogeneous in their N-terminal region. This entry represents tropomyosin (Tmp) 1, 2 and 3. Within the yeast Tmp1 and Tmp2, biochemical and sequence analyses indicate that Tpm2 spans four actin monomers along a filament, whereas Tpm1 spans five. Despite its shorter length, Tpm2 can compete with Tpm1 for binding to F-actin. Over-expression of Tpm2 in vivo alters the axial budding of haploids to a bipolar pattern, and this can be partially suppressed by co-over-expression of Tpm1. This suggests distinct functions for the two tropomyosins, and indicates that the ratio between them is important for correct morphogenesis [].; PDB: 2EFR_A 2Z5H_C 2Z5I_D 2D3E_B 2EFS_D 3U59_B 1C1G_C 1IHQ_A 3AZD_B 1MV4_B ....
Probab=37.99 E-value=1.5e+02 Score=22.58 Aligned_cols=57 Identities=9% Similarity=0.162 Sum_probs=47.2
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHh
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEK 87 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~ 87 (104)
.+..+..++.....-......||..-+. =|..+.+.++++..+|..+..||..+-+.
T Consensus 16 ~~~~~~~~l~~~~~~~~~aE~e~~~l~r-ri~~lE~~le~~eerL~~~~~kL~~~e~~ 72 (237)
T PF00261_consen 16 RLEEAEEKLKEAEKRAEKAEAEVASLQR-RIQLLEEELERAEERLEEATEKLEEAEKR 72 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHCCCHHHHCCCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 4455666666666677888999999999 89999999999999999999999887654
No 56
>COG4949 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]
Probab=37.46 E-value=75 Score=26.82 Aligned_cols=70 Identities=23% Similarity=0.269 Sum_probs=46.3
Q ss_pred HHHHHHHHHHHHHHHh-hHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhcceeec
Q psy7549 28 EQLTSDLRNKIQALKS-LTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYKT 102 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~-lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~ 102 (104)
|+..+.|+.|+.+--. +-.-|+-|++.||..+|..|+... ..+.+|-.+..-+...+- .+|+ .||.-|++
T Consensus 311 eeRqanLSrklaRat~LlRtwidve~erQN~~lL~~Md~ra-~lQlrLQqtVEGLSvaAv---sYYV-vGLiGYl~ 381 (424)
T COG4949 311 EERQANLSRKLARATALLRTWIDVELERQNQELLNSMDARA-QLQLRLQQTVEGLSVAAV---SYYV-VGLIGYLA 381 (424)
T ss_pred HHHHhhHHHHHHHHHHHHHHHhhHHHHhhhHHHHHhhhHHH-HHHHHHHHHhccceehhh---hHHH-HHHHHHHH
Confidence 4456788888877654 456799999999997888777643 356666666665554432 2333 46666654
No 57
>PF00015 MCPsignal: Methyl-accepting chemotaxis protein (MCP) signalling domain; InterPro: IPR004089 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the signalling domain found in several methyl-accepting chemotaxis proteins. This domain is thought to transduce the signal to CheA since it is highly conserved in very diverse MCPs.; GO: 0004871 signal transducer activity, 0007165 signal transduction, 0016020 membrane; PDB: 2CH7_A 3ZX6_B 1QU7_A 3G6B_B 3UR1_C 3G67_B.
Probab=36.76 E-value=1.5e+02 Score=20.88 Aligned_cols=30 Identities=3% Similarity=0.092 Sum_probs=12.0
Q ss_pred HHHHHHHhhHHHHhhhhHHHHhhccchHHHH
Q psy7549 48 IGTEVKYQNEHLLRGMDDDFDRTGGFLNNSM 78 (104)
Q Consensus 48 Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~ 78 (104)
+..++..... .++.+...|......+....
T Consensus 119 ~~~~i~~~~~-~~~~~~~~l~~i~~~~~~i~ 148 (213)
T PF00015_consen 119 SREQIEEGSE-SVEETSESLEEIAESVEEIS 148 (213)
T ss_dssp HHHHHHHHHH-HHHHHHHHHHHHHHHHHHHH
T ss_pred chhhhhhhcc-cchhcchhhhhhhhhhhHHh
Confidence 3333444444 44444444444333333333
No 58
>PF02646 RmuC: RmuC family; InterPro: IPR003798 This protein contains several bacterial RmuC DNA recombination proteins. The function of the RMUC protein is unknown but it is suspected that it is either a structural protein that protects DNA against nuclease action, or is itself involved in DNA cleavage at the regions of DNA secondary structures []. Proteins in this family are predicted to contain a central endonuclease-like fold domain, surrounded by coiled coils, consistent with a direct role in DNA cleavage [, ].
Probab=36.39 E-value=1.8e+02 Score=23.06 Aligned_cols=49 Identities=10% Similarity=0.089 Sum_probs=24.1
Q ss_pred HHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH
Q psy7549 34 LRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL 83 (104)
Q Consensus 34 L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~ 83 (104)
+...+..+..++..|++++..=-. -++.++..++++......+.+++.+
T Consensus 231 ~~~na~~I~~~~~~l~~~~~~~~~-~~~~l~k~l~~a~~~~~~~~~~~~~ 279 (304)
T PF02646_consen 231 QNKNAEEIAELAGKLYDRFGKFVE-HLEKLGKSLDKAVKSYNKAVGSLEK 279 (304)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444455555555555555544 4455555555554444444444433
No 59
>PF08518 GIT_SHD: Spa2 homology domain (SHD) of GIT; InterPro: IPR013724 GIT proteins are signalling integrators with GTPase-activating function which may be involved in the organisation of the cytoskeletal matrix assembled at active zones (CAZ). The function of the CAZ might be to define sites of neurotransmitter release. Mutations in the Spa2 homology domain (SHD) domain of GIT1 described here interfere with the association of GIT1 with Piccolo, beta-PIX, and focal adhesion kinase [].
Probab=35.90 E-value=46 Score=18.41 Aligned_cols=17 Identities=24% Similarity=0.372 Sum_probs=14.0
Q ss_pred HHHHhhHHHHHHHHHHh
Q psy7549 39 QALKSLTIDIGTEVKYQ 55 (104)
Q Consensus 39 ~~LK~lsi~Ig~Ev~~Q 55 (104)
.+...|+.+|.+|++.-
T Consensus 11 ~~F~eL~~DV~~E~~RR 27 (31)
T PF08518_consen 11 QRFEELATDVYDELDRR 27 (31)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 46788999999999753
No 60
>PF08372 PRT_C: Plant phosphoribosyltransferase C-terminal; InterPro: IPR013583 This domain is found at the C terminus of phosphoribosyltransferases and phosphoribosyltransferase-like proteins. It contains putative transmembrane regions. It often appears together with calcium-ion dependent C2 domains (IPR000008 from INTERPRO).
Probab=35.83 E-value=62 Score=23.92 Aligned_cols=48 Identities=23% Similarity=0.315 Sum_probs=34.2
Q ss_pred chHHHhhH-----HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 21 DAIHQENE-----QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 21 ~~lE~qND-----~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
+.++||-| +..+.|..+..+|++++..+ ||. |+++....++..+.+.=
T Consensus 39 deldEEfD~~ps~~~~~~lr~Rydrlr~va~rv------Q~v--lgd~At~gERl~allsW 91 (156)
T PF08372_consen 39 DELDEEFDTFPSSRPPDSLRMRYDRLRSVAGRV------QNV--LGDVATQGERLQALLSW 91 (156)
T ss_pred chhhhhhcccccccccHHHHHHHHHHHHHHHHH------HHH--HHHHHHHHHHHHHhhcc
Confidence 45555544 34567899999999999876 555 78788877777776653
No 61
>smart00502 BBC B-Box C-terminal domain. Coiled coil region C-terminal to (some) B-Box domains
Probab=35.72 E-value=1.2e+02 Score=19.47 Aligned_cols=25 Identities=12% Similarity=0.276 Sum_probs=12.5
Q ss_pred HHhhhhHHHHhhccchHHHHHHHHH
Q psy7549 59 LLRGMDDDFDRTGGFLNNSMARVVL 83 (104)
Q Consensus 59 lLD~l~~~fd~t~~~L~~t~~Rl~~ 83 (104)
||+.++.........|..-..++..
T Consensus 62 ll~~l~~~~~~~~~~l~~q~~~l~~ 86 (127)
T smart00502 62 LLEDLEEQKENKLKVLEQQLESLTQ 86 (127)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5555555555544444444444444
No 62
>KOG3208|consensus
Probab=34.79 E-value=2.3e+02 Score=22.46 Aligned_cols=75 Identities=11% Similarity=0.108 Sum_probs=56.8
Q ss_pred CCCCCCCCCCCCcchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 8 NYYEPVPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 8 ~~~~~~p~~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
+.|+.+|+-.+ .+.+-.|++ .++.=..-|..+=+.+.+=.+-...|+. +|.++++-|-.+..++-....=|.++-
T Consensus 130 ~~~~~~~~~~~-~e~~lkE~~-~in~s~~~vde~Is~A~aTre~l~~Qrs-~l~~i~~k~~~~a~r~P~IN~Ll~kIk 204 (231)
T KOG3208|consen 130 SSYPSASGFNR-GEMYLKEHD-HINNSIRLVDELISQAQATRENLHSQRS-VLGGINNKVNNIANRFPAINQLLQKIK 204 (231)
T ss_pred ccCCccCCCch-HHHHHHHhc-cccchHHHHHHHHHHHHHHHHHHHHHHH-HHHhHHHHHHHHHHhcchHHHHHHHHH
Confidence 66777776553 456665655 5566666777777788888899999999 999999888888888877777777765
No 63
>PF14712 Snapin_Pallidin: Snapin/Pallidin
Probab=34.54 E-value=1.3e+02 Score=19.30 Aligned_cols=25 Identities=12% Similarity=-0.015 Sum_probs=12.6
Q ss_pred HhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 60 LRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 60 LD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
|.++-..|.....++.+.-+|+.++
T Consensus 66 L~~ikkrm~~l~~~l~~lk~R~~~L 90 (92)
T PF14712_consen 66 LVNIKKRMSNLHERLQKLKKRADKL 90 (92)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4445555555555555555554443
No 64
>PF08181 DegQ: DegQ (SacQ) family; InterPro: IPR012554 This family consists of the DegQ (formerly sacQ) regulatory peptides. The DegQ family of peptides control the rates of synthesis of a class of both secreted and intracellular degradative enzymes in Bacillus subtilis. DegQ is 46 amino acids long and activates the synthesis of degradative enzymes. The expression of this peptide was shown to be subjected both to catabolite repression and DegS-DegU-mediated control. Thus allowing an increase in the rate of synthesis of degQ under conditions of nitrogen starvation [].
Probab=34.30 E-value=1.1e+02 Score=18.35 Aligned_cols=32 Identities=28% Similarity=0.513 Sum_probs=23.6
Q ss_pred HHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHh
Q psy7549 37 KIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDR 69 (104)
Q Consensus 37 kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~ 69 (104)
++.-||++--.+.+|+++-.. -|.+++.+.|.
T Consensus 5 ~ieelkqll~rle~eirett~-sl~ninksidq 36 (46)
T PF08181_consen 5 KIEELKQLLWRLENEIRETTD-SLRNINKSIDQ 36 (46)
T ss_pred HHHHHHHHHHHHHHHHHHHHH-HHHHHHHhHHH
Confidence 455678888888888888887 77777666554
No 65
>PRK10807 paraquat-inducible protein B; Provisional
Probab=33.92 E-value=1.9e+02 Score=25.10 Aligned_cols=19 Identities=32% Similarity=0.392 Sum_probs=9.5
Q ss_pred CCCCCCCCCCCCcchHHHh
Q psy7549 8 NYYEPVPNQFDGGDAIHQE 26 (104)
Q Consensus 8 ~~~~~~p~~~~~~~~lE~q 26 (104)
.+|.-+|+.+++-+.|+++
T Consensus 403 ~~~pvIPt~ps~l~~l~~~ 421 (547)
T PRK10807 403 NGYPIIPTVSGGLAQIQQK 421 (547)
T ss_pred CCCceeecCCCCHHHHHHH
Confidence 3454477766443444433
No 66
>COG2900 SlyX Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.54 E-value=1.4e+02 Score=19.60 Aligned_cols=46 Identities=9% Similarity=0.080 Sum_probs=31.6
Q ss_pred HhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhc
Q psy7549 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTG 71 (104)
Q Consensus 25 ~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~ 71 (104)
.+-++.+..|..++.-+-..=..+.+-|-+|-. .+|.+...++...
T Consensus 4 ~~lE~Ri~eLE~r~AfQE~tieeLn~~laEq~~-~i~k~q~qlr~L~ 49 (72)
T COG2900 4 MELEARIIELEIRLAFQEQTIEELNDALAEQQL-VIDKLQAQLRLLT 49 (72)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHH
Confidence 345678889999988888777777777777777 6665555444433
No 67
>PF10372 YojJ: Bacterial membrane-spanning protein N-terminus; InterPro: IPR019457 This entry is found at the N terminus of a family of putative membrane-spanning bacterial proteins. These proteins often contain IPR003390 from INTERPRO towards the C terminus. ; PDB: 2FB5_A.
Probab=32.61 E-value=63 Score=20.97 Aligned_cols=23 Identities=17% Similarity=0.228 Sum_probs=14.4
Q ss_pred hHHHHHHHHHHHHhcCCchhhhhcceeecC
Q psy7549 74 LNNSMARVVLDIEKIKNPNIDRGLQTYKTP 103 (104)
Q Consensus 74 L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~~ 103 (104)
|+.++..+..+|- .+=|.||+.|
T Consensus 47 i~~~f~~~q~~As-------syYLq~YLsP 69 (70)
T PF10372_consen 47 IREKFLDIQTLAS-------SYYLQCYLSP 69 (70)
T ss_dssp HHHHHHHHHHHHH-------HHHHHHHHTT
T ss_pred HHHHHHHHHHHHH-------HHHHHHHccC
Confidence 4444455555544 5677899988
No 68
>PF04740 LXG: LXG domain of WXG superfamily; InterPro: IPR006829 This group of putative transposases is found in Gram-positive bacteria, mostly Bacillus members and is thought to be a Cytosolic protein. However, we have also found a Bacillus subtilis bacteriophage SPbetac2 homologue (O64023 from SWISSPROT), possibly arising as a result of horizontal transfer. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=32.41 E-value=1.9e+02 Score=20.83 Aligned_cols=63 Identities=14% Similarity=0.165 Sum_probs=27.7
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHh----hHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQ----NEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Q----n~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
+.|+.|-+..++.+...+..+..-...|..+|.+= .. -.+.+.+.+..+...|..+..+|...
T Consensus 98 ~~L~~el~~~l~~~~~~~~~~~~~~~~~~~~vsdiv~~~~~-~~~~~~~~~~~~~~~l~~~lekL~~f 164 (204)
T PF04740_consen 98 DFLESELKKKLNQLKEQIEDLQDEINSILSSVSDIVSLPKP-SSSSFIDSLEKAKKKLQETLEKLRAF 164 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhhccchHHHHhhccc-hHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44444444444444444444444333333332221 11 13444555555555555555555543
No 69
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=32.16 E-value=2.1e+02 Score=21.10 Aligned_cols=62 Identities=13% Similarity=0.147 Sum_probs=50.8
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCC
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKN 90 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n 90 (104)
....+.+...+..|+.-...+.++++.--. .|..+.+.+..-...|+.-...+..+..+.++
T Consensus 102 ~~~~~~~~~~i~~L~~~i~~~q~~~~~~i~-~L~~f~~~l~~D~~~l~~~~~~l~~~l~~~~g 163 (184)
T PF05791_consen 102 QKDKEDLKEIIEDLQDQIQKNQDKVQALIN-ELNDFKDKLQKDSRNLKTDVDELQSILAGENG 163 (184)
T ss_dssp HT-HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHhHHHHHHHHhcccC
Confidence 335578888899999999999999999999 99999999999888888888888887755443
No 70
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=31.90 E-value=1.8e+02 Score=20.23 Aligned_cols=45 Identities=16% Similarity=0.121 Sum_probs=38.9
Q ss_pred HhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhh
Q psy7549 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRT 70 (104)
Q Consensus 25 ~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t 70 (104)
.++|..+..|.......+.--..|.+=++.|+. ..+.|+-+||..
T Consensus 7 ~e~e~Ri~rLEendk~i~~~L~~Ik~gq~~qe~-v~~kld~tlD~i 51 (98)
T PF11166_consen 7 HEHEWRIRRLEENDKTIFNKLDEIKDGQHDQEL-VNQKLDRTLDEI 51 (98)
T ss_pred hhHHHHHHHHHHhhHHHHHHHHHHHHhHhhHHH-HHHHHHhhHHHH
Confidence 366788888888888888888899999999999 999999999983
No 71
>PF04912 Dynamitin: Dynamitin ; InterPro: IPR006996 Dynamitin is a subunit of the microtubule-dependent motor complex, it is also implicated in cell adhesion by binding to macrophage-enriched myristoylated alanine-rice C kinase substrate (MacMARCKS) []. It is also thought to modulate cytoplasmic dynein binding to an organelle, and plays a role in prometaphase chromosome alignment and spindle organisation during mitosis. Dynamitin is also involved in anchoring microtubules to centrosomes and may play a role in synapse formation during brain development []. ; GO: 0007017 microtubule-based process, 0005869 dynactin complex
Probab=31.85 E-value=2.5e+02 Score=22.94 Aligned_cols=47 Identities=17% Similarity=0.340 Sum_probs=26.2
Q ss_pred HHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHH
Q psy7549 35 RNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVV 82 (104)
Q Consensus 35 ~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~ 82 (104)
+..+..|...-.+|..+++.-.. +|..+...|..-...+...++.|.
T Consensus 335 ~~~l~~le~~q~~l~~~l~~~~~-~L~~ve~~~~~N~~~i~~n~~~le 381 (388)
T PF04912_consen 335 SQTLSELESQQSDLQSQLKKWEE-LLNKVEEKFKENMETIEKNVKKLE 381 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33444444445556666666666 666666666665555555555543
No 72
>PRK15396 murein lipoprotein; Provisional
Probab=31.81 E-value=1.5e+02 Score=19.48 Aligned_cols=33 Identities=18% Similarity=0.222 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhh
Q psy7549 31 TSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMD 64 (104)
Q Consensus 31 ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~ 64 (104)
++.|.+.|..++.=.....+|+..=|. =||++-
T Consensus 41 vdql~~dv~~~~~~~~~a~~eA~raN~-RlDn~~ 73 (78)
T PRK15396 41 VDQLSNDVNAMRSDVQAAKDDAARANQ-RLDNQA 73 (78)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
Confidence 334444444444444444445555555 555543
No 73
>KOG1853|consensus
Probab=31.78 E-value=1.1e+02 Score=25.21 Aligned_cols=36 Identities=19% Similarity=0.240 Sum_probs=29.3
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNE 57 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~ 57 (104)
..||+|.|+. +.|...|++||.=+.++..|+.-+.+
T Consensus 150 AfLESELdEk-e~llesvqRLkdEardlrqelavr~k 185 (333)
T KOG1853|consen 150 AFLESELDEK-EVLLESVQRLKDEARDLRQELAVRTK 185 (333)
T ss_pred HHHHHHhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3578888865 78889999999999999999876664
No 74
>PF07097 DUF1359: Protein of unknown function (DUF1359); InterPro: IPR010772 This family consists of several hypothetical bacterial and phage proteins of around 100 residues in length. Members of this family seem to be found exclusively in Lactococcus lactis and the bacteriophages that infect this species. The function of this family is unknown.
Probab=31.42 E-value=1.4e+02 Score=20.70 Aligned_cols=36 Identities=14% Similarity=0.255 Sum_probs=23.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhh
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMD 64 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~ 64 (104)
.++++....|+.|||.+-.+|.+..+--.- ++|++.
T Consensus 8 ~~~I~~~q~K~~RLk~~IH~vr~Q~~~~~i-~~D~~k 43 (102)
T PF07097_consen 8 SEQIAKIQTKICRLKNVIHAVRRQTELVKI-VLDDLK 43 (102)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhhHHHH-HHHHHh
Confidence 346788899999999987776544333333 444443
No 75
>PF07326 DUF1466: Protein of unknown function (DUF1466); InterPro: IPR009932 This family consists of several hypothetical mammalian proteins of around 240 residues in length.
Probab=31.38 E-value=33 Score=27.17 Aligned_cols=44 Identities=18% Similarity=0.240 Sum_probs=30.5
Q ss_pred CCCCCCCCCCCCCCCCcchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHH
Q psy7549 4 QHAGNYYEPVPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEV 52 (104)
Q Consensus 4 ~~~~~~~~~~p~~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev 52 (104)
|-+-|||-+ |.... . .+|-|..+|-++.=|+.||+|+....+-|
T Consensus 181 AAlrSPYSS-~~plc--~--~~e~D~DLE~V~aGI~~Lk~LSq~~DdaI 224 (233)
T PF07326_consen 181 AALRSPYSS-PEPLC--S--PSEFDSDLEPVSAGIQQLKHLSQEFDDAI 224 (233)
T ss_pred HHhcCCcCC-CCccc--C--ccccccccchhhHHHHHHHHHHHHHHHHH
Confidence 445678866 33221 1 24567788999999999999998766544
No 76
>PRK00708 sec-independent translocase; Provisional
Probab=30.89 E-value=2.6e+02 Score=21.76 Aligned_cols=56 Identities=5% Similarity=0.040 Sum_probs=35.5
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHH--HhhhhHHHHhhc-----cchHHHHHHHHHHH
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHL--LRGMDDDFDRTG-----GFLNNSMARVVLDI 85 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~l--LD~l~~~fd~t~-----~~L~~t~~Rl~~m~ 85 (104)
..+-.|+.-|+.+|.++.++.+++++... . ||++...+...+ ..|..++.-+....
T Consensus 27 ~~~R~lGk~v~k~R~~a~e~r~~~~e~~~-~~eldd~~k~~~~~~~ldp~~~l~~~~~~l~~~~ 89 (209)
T PRK00708 27 PMLRAFGKMTARMRKMAGEFRRQFDEALR-EAELDDVRQTISDARSLNPRTSLRQAMNPLRQAG 89 (209)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhh-hhhHHHHHHHHHHHHhcChHHHHHHHHHHHHHHH
Confidence 45677888899999988888888876544 2 555554444332 24555555554444
No 77
>PF06661 VirE3: VirE3; InterPro: IPR009550 This family represents a conserved region within Agrobacterium tumefaciens VirE3. Agrobacterium tumefaciens (a plant pathogen) has a tumour-inducing (Ti) plasmid of which part, the transfer (T)-region, is transferred to plant cells during the infection process. Vir proteins mediate the processing of the T-region and the transfer of a single-stranded (ss) DNA copy of this region, the T-strand, into the recipient cells. VirE3 is a translocated effector protein, but its specific role has not been established [].
Probab=30.81 E-value=53 Score=27.00 Aligned_cols=47 Identities=13% Similarity=0.168 Sum_probs=41.2
Q ss_pred HHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhc
Q psy7549 41 LKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKI 88 (104)
Q Consensus 41 LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~ 88 (104)
|--=+..||-+|.++-. |++.-+.-||.+.+.|+.+..-|++|.++-
T Consensus 220 ld~egne~grdi~shrr-l~nkrsa~yd~~tgql~s~kht~gkiykse 266 (317)
T PF06661_consen 220 LDKEGNELGRDISSHRR-LFNKRSAVYDEATGQLKSAKHTFGKIYKSE 266 (317)
T ss_pred HcccchhhhhhHHHHHH-HhhhcccccccccchhhhhhhhhhHHHHHH
Confidence 33456789999999999 999999999999999999999999988753
No 78
>PRK00404 tatB sec-independent translocase; Provisional
Probab=30.41 E-value=1.7e+02 Score=21.50 Aligned_cols=40 Identities=15% Similarity=0.019 Sum_probs=33.5
Q ss_pred HHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhh
Q psy7549 29 QLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRT 70 (104)
Q Consensus 29 ~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t 70 (104)
+....|+.-|.++|....++.+|+.+.-. +|++...++..
T Consensus 27 ~laR~lG~~i~~~rr~~~~~k~ei~~E~~--~~elr~~l~~~ 66 (141)
T PRK00404 27 GAARTAGLWIGRLKRSFNAIKQEVEREIG--ADEIRRQLHNE 66 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhC--HHHHHHHHHHH
Confidence 45677888899999999999999999988 68888877763
No 79
>PRK11637 AmiB activator; Provisional
Probab=30.25 E-value=3.1e+02 Score=22.53 Aligned_cols=27 Identities=4% Similarity=0.042 Sum_probs=11.6
Q ss_pred HHHHhhHHHHhhhhHHHHhhccchHHHH
Q psy7549 51 EVKYQNEHLLRGMDDDFDRTGGFLNNSM 78 (104)
Q Consensus 51 Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~ 78 (104)
++...+. -|+.+....+.....|....
T Consensus 97 ~i~~~~~-ei~~l~~eI~~~q~~l~~~~ 123 (428)
T PRK11637 97 TLNQLNK-QIDELNASIAKLEQQQAAQE 123 (428)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHH
Confidence 3333333 34444444444444444443
No 80
>PF11315 Med30: Mediator complex subunit 30; InterPro: IPR021019 The Mediator complex is a coactivator involved in the regulated transcription of nearly all RNA polymerase II-dependent genes. Mediator functions as a bridge to convey information from gene-specific regulatory proteins to the basal RNA polymerase II transcription machinery. The Mediator complex, having a compact conformation in its free form, is recruited to promoters by direct interactions with regulatory proteins and serves for the assembly of a functional preinitiation complex with RNA polymerase II and the general transcription factors. On recruitment the Mediator complex unfolds to an extended conformation and partially surrounds RNA polymerase II, specifically interacting with the unphosphorylated form of the C-terminal domain (CTD) of RNA polymerase II. The Mediator complex dissociates from the RNA polymerase II holoenzyme and stays at the promoter when transcriptional elongation begins. The Mediator complex is composed of at least 31 subunits: MED1, MED4, MED6, MED7, MED8, MED9, MED10, MED11, MED12, MED13, MED13L, MED14, MED15, MED16, MED17, MED18, MED19, MED20, MED21, MED22, MED23, MED24, MED25, MED26, MED27, MED29, MED30, MED31, CCNC, CDK8 and CDC2L6/CDK11. The subunits form at least three structurally distinct submodules. The head and the middle modules interact directly with RNA polymerase II, whereas the elongated tail module interacts with gene-specific regulatory proteins. Mediator containing the CDK8 module is less active than Mediator lacking this module in supporting transcriptional activation. The head module contains: MED6, MED8, MED11, SRB4/MED17, SRB5/MED18, ROX3/MED19, SRB2/MED20 and SRB6/MED22. The middle module contains: MED1, MED4, NUT1/MED5, MED7, CSE2/MED9, NUT2/MED10, SRB7/MED21 and SOH1/MED31. CSE2/MED9 interacts directly with MED4. The tail module contains: MED2, PGD1/MED3, RGR1/MED14, GAL11/MED15 and SIN4/MED16. The CDK8 module contains: MED12, MED13, CCNC and CDK8. Individual preparations of the Mediator complex lacking one or more distinct subunits have been variously termed ARC, CRSP, DRIP, PC2, SMCC and TRAP. Med30 is a metazoan-specific subunit of Mediator [], having no homologues in yeasts.
Probab=29.66 E-value=2.1e+02 Score=21.08 Aligned_cols=40 Identities=20% Similarity=0.246 Sum_probs=31.4
Q ss_pred cchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHH
Q psy7549 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLL 60 (104)
Q Consensus 20 ~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lL 60 (104)
+..+.+|+.+.++.+..|-+.||.|=-.+..=+-+=|. ||
T Consensus 106 ~~~~~~er~el~e~v~~KN~qLk~iid~lR~~iweIN~-ml 145 (150)
T PF11315_consen 106 YRQLLEERKELIEQVKQKNQQLKEIIDQLRNIIWEINT-ML 145 (150)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HH
Confidence 46688888999999999999999887776665555565 54
No 81
>PF10805 DUF2730: Protein of unknown function (DUF2730); InterPro: IPR020269 This entry represents a family of various hypothetical proteins. The proteins, which include HI1498 and Gp25, from phage Mu, are currently uncharacterised.
Probab=28.00 E-value=2e+02 Score=19.49 Aligned_cols=55 Identities=11% Similarity=0.077 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHHh--hHHHHhhhhHHHHhhccchHHHHHHHHHHH
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKYQ--NEHLLRGMDDDFDRTGGFLNNSMARVVLDI 85 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~Q--n~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~ 85 (104)
.++.|..++.....--..|..+++.- .. -+..|.-.+.+.++.++..-.++.-|.
T Consensus 36 ~~~~l~~~~~~~~~Rl~~lE~~l~~LPt~~-dv~~L~l~l~el~G~~~~l~~~l~~v~ 92 (106)
T PF10805_consen 36 DIEKLEERLDEHDRRLQALETKLEHLPTRD-DVHDLQLELAELRGELKELSARLQGVS 92 (106)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCCHH-HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence 34555555555544444555555554 33 355555555555555555555554443
No 82
>KOG3894|consensus
Probab=27.45 E-value=3.6e+02 Score=22.36 Aligned_cols=69 Identities=10% Similarity=0.127 Sum_probs=49.5
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHH----------HHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcCC
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTI----------DIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIKN 90 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi----------~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n 90 (104)
+++|+||-+++..+.+-..-.+++=. -+-+=|=.|-. -+|.+.+-.+++...++....-+.+..+.+..
T Consensus 214 Q~~E~En~~l~~~~n~~~devrqie~~lvEI~~Lq~ifsehvl~Q~~-~Id~I~d~~~~~teNIk~gNe~irka~~~~~~ 292 (316)
T KOG3894|consen 214 QLLETENQRLLNELNELLDEVRQIEKRLVEISALQDIFSEHVLQQDQ-NIDLIHDLQSGATENIKDGNEEIRKAKRNNGG 292 (316)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhcccchhhhhhhHHHHHHHHHhccc
Confidence 78899998888777744433333322 23334555666 78999999999999999999999998866654
No 83
>PRK15048 methyl-accepting chemotaxis protein II; Provisional
Probab=27.25 E-value=3.7e+02 Score=22.45 Aligned_cols=45 Identities=11% Similarity=0.132 Sum_probs=22.9
Q ss_pred CCCCCCCCCCCCCCc-chHHHhhHHHHHHHHHHHHHHHhhHHHHHH
Q psy7549 6 AGNYYEPVPNQFDGG-DAIHQENEQLTSDLRNKIQALKSLTIDIGT 50 (104)
Q Consensus 6 ~~~~~~~~p~~~~~~-~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~ 50 (104)
.|+.-.++|....+. ..|-..-+...+.|...|..++..+..|..
T Consensus 232 ~Gdlt~~i~~~~~DEig~l~~s~n~m~~~l~~~i~~i~~~s~~v~~ 277 (553)
T PRK15048 232 GGNLANTLTIDGRSEMGDLAQSVSHMQRSLTDTVTHVREGSDAIYA 277 (553)
T ss_pred cCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 355444555443222 333344445666666666666665554444
No 84
>KOG0860|consensus
Probab=27.25 E-value=2.3e+02 Score=20.13 Aligned_cols=21 Identities=5% Similarity=0.302 Sum_probs=9.6
Q ss_pred chHHHhhHHHHHHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQAL 41 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~L 41 (104)
+.+++|-|+-++-+..-|...
T Consensus 32 ~~tq~QvdeVv~IMr~NV~KV 52 (116)
T KOG0860|consen 32 QQTQAQVDEVVDIMRENVEKV 52 (116)
T ss_pred HHHHHHHHHHHHHHHHhHHHH
Confidence 344444444444444444443
No 85
>PF01213 CAP_N: Adenylate cyclase associated (CAP) N terminal; InterPro: IPR013992 Cyclase-associated proteins (CAPs) are highly conserved actin-binding proteins present in a wide range of organisms including yeast, fly, plants, and mammals. CAPs are multifunctional proteins that contain several structural domains. CAP is involved in species-specific signalling pathways [, , , ]. In Drosophila, CAP functions in Hedgehog-mediated eye development and in establishing oocyte polarity. In Dictyostelium (slim mold), CAP is involved in microfilament reorganisation near the plasma membrane in a PIP2-regulated manner and is required to perpetuate the cAMP relay signal to organise fruitbody formation. In plants, CAP is involved in plant signalling pathways required for co-ordinated organ expansion. In yeast, CAP is involved in adenylate cyclase activation, as well as in vesicle trafficking and endocytosis. In both yeast and mammals, CAPs appear to be involved in recycling G-actin monomers from ADF/cofilins for subsequent rounds of filament assembly [, ]. In mammals, there are two different CAPs (CAP1 and CAP2) that share 64% amino acid identity. All CAPs appear to contain a C-terminal actin-binding domain that regulates actin remodelling in response to cellular signals and is required for normal cellular morphology, cell division, growth and locomotion in eukaryotes. CAP directly regulates actin filament dynamics and has been implicated in a number of complex developmental and morphological processes, including mRNA localisation and the establishment of cell polarity. Actin exists both as globular (G) (monomeric) actin subunits and assembled into filamentous (F) actin. In cells, actin cycles between these two forms. Proteins that bind F-actin often regulate F-actin assembly and its interaction with other proteins, while proteins that interact with G-actin often control the availability of unpolymerised actin. CAPs bind G-actin. In addition to actin-binding, CAPs can have additional roles, and may act as bifunctional proteins. In Saccharomyces cerevisiae (Baker's yeast), CAP is a component of the adenylyl cyclase complex (Cyr1p) that serves as an effector of Ras during normal cell signalling. S. cerevisiae CAP functions to expose adenylate cyclase binding sites to Ras, thereby enabling adenylate cyclase to be activated by Ras regulatory signals. In Schizosaccharomyces pombe (Fission yeast), CAP is also required for adenylate cyclase activity, but not through the Ras pathway. In both organisms, the N-terminal domain is responsible for adenylate cyclase activation, but the S cerevisiae and S. pombe N-termini cannot complement one another. Yeast CAPs are unique among the CAP family of proteins, because they are the only ones to directly interact with and activate adenylate cyclase []. S. cerevisiae CAP has four major domains. In addition to the N-terminal adenylate cyclase-interacting domain, and the C-terminal actin-binding domain, it possesses two other domains: a proline-rich domain that interacts with Src homology 3 (SH3) domains of specific proteins, and a domain that is responsible for CAP oligomerisation to form multimeric complexes (although oligomerisation appears to involve the N- and C-terminal domains as well). The proline-rich domain interacts with profilin, a protein that catalyses nucleotide exchange on G-actin monomers and promotes addition to barbed ends of filamentous F-actin []. Since CAP can bind profilin via a proline-rich domain, and G-actin via a C-terminal domain, it has been suggested that a ternary G-actin/CAP/profilin complex could be formed. This entry represents the N-terminal domain of CAP proteins. This domain has an all-alpha structure consisting of six helices in a bundle with a left-handed twist and an up-and-down topology [].; GO: 0003779 actin binding, 0007010 cytoskeleton organization; PDB: 1TJF_B 1S0P_A.
Probab=26.90 E-value=1.9e+02 Score=23.56 Aligned_cols=29 Identities=21% Similarity=0.383 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHhhHHHHHHHHHHhhHHHHh
Q psy7549 32 SDLRNKIQALKSLTIDIGTEVKYQNEHLLR 61 (104)
Q Consensus 32 d~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD 61 (104)
+-|...|..+-.++..||.+|.+|.. ++.
T Consensus 51 ~~i~~~l~~f~~~S~~igg~V~~~a~-~v~ 79 (312)
T PF01213_consen 51 ELINGPLKPFVELSKKIGGDVAEQAQ-LVK 79 (312)
T ss_dssp HHHHHHHHHHHHHHHHH-HHHHHHHH-HHH
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHHH-HHH
Confidence 45789999999999999999999999 544
No 86
>KOG3650|consensus
Probab=25.31 E-value=1.8e+02 Score=20.64 Aligned_cols=16 Identities=25% Similarity=0.453 Sum_probs=8.1
Q ss_pred HHHhhHHHHhhhhHHHHh
Q psy7549 52 VKYQNEHLLRGMDDDFDR 69 (104)
Q Consensus 52 v~~Qn~~lLD~l~~~fd~ 69 (104)
++-||. ||+|+.-+|.
T Consensus 66 LELQnT--LdDLSqRVds 81 (120)
T KOG3650|consen 66 LELQNT--LDDLSQRVDS 81 (120)
T ss_pred HHHHHH--HHHHHHHHHH
Confidence 444555 5555555444
No 87
>PF02970 TBCA: Tubulin binding cofactor A; InterPro: IPR004226 The folding pathway of tubulins includes highly specific interactions with a series of cofactors (A, B, C, D and E) after they are released from the eukaryotic chaperonin CCT. Cofactors A and D capture and stabilise tubulin in a quasi-native conformation. Cofactor E binds to the cofactor D-tubulin complex, and interaction with cofactor C then causes the release of tubulin poypeptides in the native state. This family is the tubulin-specific chaperone A.; GO: 0051082 unfolded protein binding, 0007021 tubulin complex assembly, 0005874 microtubule; PDB: 3MXZ_A 1QSD_A 1H7C_A.
Probab=24.63 E-value=2.1e+02 Score=18.82 Aligned_cols=57 Identities=14% Similarity=0.126 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHHhcC
Q psy7549 31 TSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIEKIK 89 (104)
Q Consensus 31 ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~~~~ 89 (104)
++.-..+|..+|.=+.+.+ +|+.|.. +|+.-..-+-.+..+|..++..|..+.....
T Consensus 23 ~~~q~~rle~~k~~~~de~-~iKkq~~-vl~Et~~mipd~~~RL~~a~~~L~~~l~~~~ 79 (90)
T PF02970_consen 23 VEEQEARLEKMKAEGEDEY-DIKKQEE-VLEETKMMIPDCQQRLEKAVEDLEEFLEEEE 79 (90)
T ss_dssp HHHHHHHHHHHHHCTTSHH-HHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhcCCcHH-HHHHHHH-HHHHHHHHhHHHHHHHHHHHHHHHHHHHHCc
Confidence 3455577777777766554 7899999 9999999999999999999999998776544
No 88
>TIGR02132 phaR_Bmeg polyhydroxyalkanoic acid synthase, PhaR subunit. This model describes a protein, PhaR, localized to polyhydroxyalkanoic acid (PHA) inclusion granules in Bacillus cereus and related species. PhaR is required for PHA biosynthesis along with PhaC and may be a regulatory subunit.
Probab=24.41 E-value=3.3e+02 Score=20.96 Aligned_cols=58 Identities=16% Similarity=0.153 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
-.++-.|..||.++-....++-++++.|-+ ---.+..++......|+.-=+++.+|.+
T Consensus 78 A~lvinlE~kvD~lee~fdd~~d~l~~q~e-q~~~~~~~v~~~~q~~~~l~~K~D~~L~ 135 (189)
T TIGR02132 78 ASLVINLEEKVDLIEEFFDDKFDELEAQQE-QAPALKKDVTKLKQDIKSLDKKLDKILE 135 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hCchHHhHHHHHHHHHHHHHHHHHHHHH
Confidence 345667777777777777777777775554 4445556666666666666566655543
No 89
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=24.39 E-value=2.9e+02 Score=23.41 Aligned_cols=57 Identities=16% Similarity=0.179 Sum_probs=43.4
Q ss_pred cchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 20 ~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
++.||+|-++.++.--+-|..||+==-.|.+=+.+|...=.-++.+.|+...++|..
T Consensus 260 ~erLEeqlNd~~elHq~Ei~~LKqeLa~~EEK~~Yqs~eRaRdi~E~~Es~qtRisk 316 (395)
T PF10267_consen 260 YERLEEQLNDLTELHQNEIYNLKQELASMEEKMAYQSYERARDIWEVMESCQTRISK 316 (395)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhHHHHHHHHHHHHHHH
Confidence 367888888888888888888888777788878777665677777777777766654
No 90
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=24.21 E-value=1.8e+02 Score=17.89 Aligned_cols=41 Identities=24% Similarity=0.474 Sum_probs=25.6
Q ss_pred HHHHHHHHHHHHHhhH--------HHHHHHHHHhhHHHHhhhhHHHHhhc
Q psy7549 30 LTSDLRNKIQALKSLT--------IDIGTEVKYQNEHLLRGMDDDFDRTG 71 (104)
Q Consensus 30 ~ld~L~~kV~~LK~ls--------i~Ig~Ev~~Qn~~lLD~l~~~fd~t~ 71 (104)
.++.+..++..++..+ ..|...+++=.. +|+.|+-.+-.+-
T Consensus 4 l~~~i~~~l~~~~~~~~~~r~~~i~~~e~~l~ea~~-~l~qMe~E~~~~p 52 (79)
T PF05008_consen 4 LTAEIKSKLERIKNLSGEQRKSLIREIERDLDEAEE-LLKQMELEVRSLP 52 (79)
T ss_dssp HHHHHHHHHHHGGGS-CHHHHHHHHHHHHHHHHHHH-HHHHHHHHHCTS-
T ss_pred HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHhCC
Confidence 4566667777666543 456666667777 7777776665554
No 91
>PF03670 UPF0184: Uncharacterised protein family (UPF0184); InterPro: IPR022788 This family of proteins has no known function.
Probab=24.08 E-value=2e+02 Score=19.31 Aligned_cols=35 Identities=17% Similarity=0.113 Sum_probs=20.8
Q ss_pred HHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHHH
Q psy7549 51 EVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDIE 86 (104)
Q Consensus 51 Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~~ 86 (104)
|...=|. .||.|+..+|....+-..-..+|..+.+
T Consensus 27 E~~~ins-~LD~Lns~LD~LE~rnD~l~~~L~~LLe 61 (83)
T PF03670_consen 27 EYAAINS-MLDQLNSCLDHLEQRNDHLHAQLQELLE 61 (83)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence 3444455 6666666666666666666666666554
No 92
>PF00429 TLV_coat: ENV polyprotein (coat polyprotein); InterPro: IPR018154 Enveloped viruses such as Human immunodeficiency virus 1, influenza virus, and Ebola virus sp. express a surface glycoprotein that mediates both cell attachment and fusion of viral and cellular membranes. The ENV polyprotein (coat polyprotein) usually contains two coat proteins which differ depending on the source. The structure of a number of the ENV polyprotein domains have been determined: The crystal structure of an extraviral segment of the Moloney murine leukemia virus (MoMuLV) transmembrane (TM) subunit has been determined to 1.7-A resolution. This segment contains a trimeric coiled coil, with a hydrophobic cluster at its base and a strand that packs in an antiparallel orientation against the coiled coil. This structure serves as a model for a wide range of viral fusion proteins; key residues in this structure are conserved among C- and D-type retroviruses and the filovirus ebola []. An essential step in retrovirus infection is the binding of the virus to its receptor on a target cell. The structure of the receptor-binding domain of the envelope glycoprotein from Friend murine leukemia virus (F-MuLV) has been determined determined to 2.0-A resolution. The core of the domain is an antiparallel beta sandwich, with two interstrand loops forming a helical subdomain atop the sandwich. The residues in the helical region, but not in the beta sandwich, are highly variable among mammalian C-type retroviruses with distinct tropisms, indicating that the helical subdomain determines the receptor specificity of the virus []. ; PDB: 1LCS_B 1MOF_A 1XNL_A 2XZ3_A 1AOL_A 1Y4M_C.
Probab=24.06 E-value=2.1e+02 Score=24.99 Aligned_cols=64 Identities=6% Similarity=0.038 Sum_probs=39.5
Q ss_pred HHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHHH-HhcCCchhhhhcceee
Q psy7549 37 KIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLDI-EKIKNPNIDRGLQTYK 101 (104)
Q Consensus 37 kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m~-~~~~n~~~~~~l~~~~ 101 (104)
.+..+++|+.+|...++.--+ -|..|.+++++....+-....-++-+. +.|+-=...-.-|||.
T Consensus 422 ~~~~~~~L~~~~~~d~~~~~~-~i~~l~~~~~sl~~~v~qnr~~lD~l~a~~Gg~C~~l~~~CC~y 486 (561)
T PF00429_consen 422 STQQYRQLSNALEEDLQALED-SISALQEQLTSLAEVVLQNRRALDLLTAEQGGLCAALKEECCFY 486 (561)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHTGGGTSHHHHHTS-----
T ss_pred hhhhhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHhcCchhhhhhhhhcCCchhhhCCceEEE
Confidence 367777888888888887777 788888888887776666666666644 3333222233456654
No 93
>KOG1151|consensus
Probab=24.01 E-value=1.9e+02 Score=26.07 Aligned_cols=66 Identities=14% Similarity=0.129 Sum_probs=39.8
Q ss_pred HHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHh---hccchHHHHHHHHHHHHhcCCchhhhhcceeec
Q psy7549 36 NKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDR---TGGFLNNSMARVVLDIEKIKNPNIDRGLQTYKT 102 (104)
Q Consensus 36 ~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~---t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~ 102 (104)
+.|..|-.+--+....+++|+. +|+.--+...+ +..+|-.-.++..+|+-.-+.-.-.-+|.||.|
T Consensus 247 griddllRancDlRRQIdEqqk-~LEkyKerlnkcv~msKkLLIeKs~qEk~a~RdKsmqDrlRlGhFtT 315 (775)
T KOG1151|consen 247 GRIDDLLRANCDLRRQIDEQQK-MLEKYKERLNKCVTMSKKLLIEKSKQEKMACRDKSMQDRLRLGHFTT 315 (775)
T ss_pred chHHHHHHhhhHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHhhhhhHHHHHhhhhhhhhhcccccceee
Confidence 3455555666677778888888 88877766665 333444444555566533222222347888876
No 94
>PF05377 FlaC_arch: Flagella accessory protein C (FlaC); InterPro: IPR008039 Although archaeal flagella appear superficially similar to those of bacteria, they are quite distinct []. In several archaea, the flagellin genes are followed immediately by the flagellar accessory genes flaCDEFGHIJ. The gene products may have a role in translocation, secretion, or assembly of the flagellum. FlaC is a protein whose exact role is unknown but it has been shown to be membrane-associated (by immuno-blotting fractionated cells) [].
Probab=23.36 E-value=2e+02 Score=17.91 Aligned_cols=13 Identities=23% Similarity=0.480 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHhh
Q psy7549 32 SDLRNKIQALKSL 44 (104)
Q Consensus 32 d~L~~kV~~LK~l 44 (104)
++|.++|.++...
T Consensus 3 ~elEn~~~~~~~~ 15 (55)
T PF05377_consen 3 DELENELPRIESS 15 (55)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555554443
No 95
>PF05565 Sipho_Gp157: Siphovirus Gp157; InterPro: IPR008840 This family contains both viral and bacterial proteins which are related to the Gp157 protein of the Streptococcus thermophilus SFi bacteriophage. It is thought that bacteria possessing the gene coding for this protein have an increased resistance to the bacteriophage [].
Probab=23.35 E-value=2.9e+02 Score=19.91 Aligned_cols=58 Identities=22% Similarity=0.337 Sum_probs=38.3
Q ss_pred HHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHH
Q psy7549 23 IHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARV 81 (104)
Q Consensus 23 lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl 81 (104)
++.+-+.-++....-|..+..-...|..|++.-.. .-....+..++...-|..+|...
T Consensus 34 i~~~~~~K~~~~~~~Ik~~ea~~e~~k~E~krL~~-rkk~~e~~~~~Lk~yL~~~m~~~ 91 (162)
T PF05565_consen 34 IEDEIEEKADNIAKVIKNLEADIEAIKAEIKRLQE-RKKSIENRIDRLKEYLLDAMEAA 91 (162)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHc
Confidence 44455556666666777777777777888877777 66666666666666666665554
No 96
>COG4942 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]
Probab=23.04 E-value=4.9e+02 Score=22.37 Aligned_cols=58 Identities=10% Similarity=0.143 Sum_probs=41.5
Q ss_pred HhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHH
Q psy7549 25 QENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVL 83 (104)
Q Consensus 25 ~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~ 83 (104)
.|....+..+..+|...+.-.-....++.++.. -++.+....-.+...+...-+++..
T Consensus 41 ~q~q~ei~~~~~~i~~~~~~~~kL~~~lk~~e~-~i~~~~~ql~~s~~~l~~~~~~I~~ 98 (420)
T COG4942 41 KQIQKEIAALEKKIREQQDQRAKLEKQLKSLET-EIASLEAQLIETADDLKKLRKQIAD 98 (420)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHhHHHHHHhhHHH
Confidence 345667778888888888888888888888887 7777777666666666555555444
No 97
>PF00452 Bcl-2: Apoptosis regulator proteins, Bcl-2 family; InterPro: IPR000712 Apoptosis, or programmed cell death (PCD), is a common and evolutionarily conserved property of all metazoans []. In many biological processes, apoptosis is required to eliminate supernumerary or dangerous (such as pre-cancerous) cells and to promote normal development. Dysregulation of apoptosis can, therefore, contribute to the development of many major diseases including cancer, autoimmunity and neurodegenerative disorders. In most cases, proteins of the caspase family execute the genetic programme that leads to cell death. Bcl-2 proteins are central regulators of caspase activation, and play a key role in cell death by regulating the integrity of the mitochondrial and endoplasmic reticulum (ER) membranes []. At least 20 Bcl-2 proteins have been reported in mammals, and several others have been identified in viruses. Bcl-2 family proteins fall roughly into three subtypes, which either promote cell survival (anti-apoptotic) or trigger cell death (pro-apoptotic). All members contain at least one of four conserved motifs, termed Bcl-2 Homology (BH) domains. Bcl-2 subfamily proteins, which contain at least BH1 and BH2, promote cell survival by inhibiting the adapters needed for the activation of caspases. Pro-apoptotic members potentially exert their effects by displacing the adapters from the pro-survival proteins; these proteins belong either to the Bax subfamily, which contain BH1-BH3, or to the BH3 subfamily, which mostly only feature BH3 []. Thus, the balance between antagonistic family members is believed to play a role in determining cell fate. Members of the wider Bcl-2 family, which also includes Bcl-x, Bcl-w and Mcl-1, are described by their similarity to Bcl-2 protein, a member of the pro-survival Bcl-2 subfamily []. Full-length Bcl-2 proteins feature all four BH domains, seven alpha-helices, and a C-terminal hydrophobic motif that targets the protein to the outer mitochondrial membrane, ER and nuclear envelope. Active cell suicide (apoptosis) is induced by events such as growth factor withdrawal and toxins. It is controlled by regulators, which have either an inhibitory effect on programmed cell death (anti-apoptotic) or block the protective effect of inhibitors (pro-apoptotic) [, ]. Many viruses have found a way of countering defensive apoptosis by encoding their own anti-apoptosis genes preventing their target-cells from dying too soon. All proteins belonging to the Bcl-2 family [] contain either a BH1, BH2, BH3, or BH4 domain. All anti-apoptotic proteins contain BH1 and BH2 domains, some of them contain an additional N-terminal BH4 domain (Bcl-2, Bcl-x(L), Bcl-w), which is never seen in pro-apoptotic proteins, except for Bcl-x(S). On the other hand, all pro-apoptotic proteins contain a BH3 domain (except for Bad) necessary for dimerisation with other proteins of Bcl-2 family and crucial for their killing activity, some of them also contain BH1 and BH2 domains (Bax, Bak). The BH3 domain is also present in some anti-apoptotic protein, such as Bcl-2 or Bcl-x(L). Proteins that are known to contain these domains include vertebrate Bcl-2 (alpha and beta isoforms) and Bcl-x (isoforms (Bcl-x(L) and Bcl-x(S)); mammalian proteins Bax and Bak; mouse protein Bid; Xenopus laevis proteins Xr1 and Xr11; human induced myeloid leukemia cell differentiation protein MCL1 and Caenorhabditis elegans protein ced-9.; GO: 0042981 regulation of apoptosis; PDB: 2WH6_A 1K3K_A 1AF3_A 3PK1_B 2K7W_A 1F16_A 3PL7_C 2VM6_A 3I1H_A 3MQP_A ....
Probab=22.86 E-value=1.5e+02 Score=19.03 Aligned_cols=37 Identities=16% Similarity=0.211 Sum_probs=21.4
Q ss_pred HHHHHHHHhhHHHHhhhhHHHHh-hccchHHHHHHHHH
Q psy7549 47 DIGTEVKYQNEHLLRGMDDDFDR-TGGFLNNSMARVVL 83 (104)
Q Consensus 47 ~Ig~Ev~~Qn~~lLD~l~~~fd~-t~~~L~~t~~Rl~~ 83 (104)
.|++|++.+....+.++-+.++- +......++..+..
T Consensus 3 ~i~~~~e~~~~~~f~~~~~~l~~~~~~~~~~~f~~v~~ 40 (101)
T PF00452_consen 3 RIADELERKYEDFFENMLNQLNINTPDNAYETFNEVAE 40 (101)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHCSSSTTTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCCcchHHHHHHHHHH
Confidence 46677777666456777776665 44344444444444
No 98
>PF05082 Rop-like: Rop-like; InterPro: IPR007774 This family contains several uncharacterised bacterial proteins. These proteins are found in nitrogen fixation operons, so are likely to play a role in this process.; PDB: 3CSX_A 2JS5_B.
Probab=22.85 E-value=2.2e+02 Score=18.30 Aligned_cols=25 Identities=8% Similarity=0.194 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHhhHHHHHHHHHH
Q psy7549 30 LTSDLRNKIQALKSLTIDIGTEVKY 54 (104)
Q Consensus 30 ~ld~L~~kV~~LK~lsi~Ig~Ev~~ 54 (104)
.+++|...|+.|+.++.++--++-+
T Consensus 3 d~~eLk~evkKL~~~A~~~kmdLHD 27 (66)
T PF05082_consen 3 DIEELKKEVKKLNRKATQAKMDLHD 27 (66)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4689999999999999888777643
No 99
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=22.47 E-value=3.7e+02 Score=20.72 Aligned_cols=16 Identities=13% Similarity=0.077 Sum_probs=9.7
Q ss_pred hccchHHHHHHHHHHH
Q psy7549 70 TGGFLNNSMARVVLDI 85 (104)
Q Consensus 70 t~~~L~~t~~Rl~~m~ 85 (104)
...+++.+|+.|..++
T Consensus 250 ~s~~~N~~mk~LTvvt 265 (318)
T TIGR00383 250 VNNKMNEIMKILTVVS 265 (318)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 4556666776665543
No 100
>PRK13842 conjugal transfer protein TrbJ; Provisional
Probab=22.31 E-value=3.9e+02 Score=21.45 Aligned_cols=26 Identities=19% Similarity=0.353 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVK 53 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~ 53 (104)
.+.++.+.+.|..++++...|.+|+.
T Consensus 54 ~r~leQInnQi~ql~q~~~QlQnQ~q 79 (267)
T PRK13842 54 GQSAEQINNQITQISQLAEQIQNQLN 79 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 44566677778888888888888875
No 101
>PF05791 Bacillus_HBL: Bacillus haemolytic enterotoxin (HBL); InterPro: IPR008414 This family consists of several Bacillus haemolytic enterotoxins (HblC, HblD, HblA, NheA, and NheB), which can cause food poisoning in humans []. Haemolysin BL (encoded by HBL) and non-haemolytic enterotoxin (encoded by NHE), represent the major enterotoxins produced by Bacillus cereus. Most of the cytotoxic activity of B. cereus isolates has been attributed to the level of Nhe, which may indicate a highly diarrheic potential []. The exact mechanism by which B. cereus causes diarrhoea is unknown. Hbl, cytotoxin K (CytK) and Nhe are all putative causes. Both Hbl and Nhe are three-component cytotoxins and maximal cytotoxicity of Nhe against epithelia is dependent on all three components. Nhe has haemolytic activity against erythrocytes from a variety of species. It is possible that the common structural and functional properties of these toxins indicate that the Hbl/Nhe and ClyA families of toxins constitute a superfamily of pore-forming cytotoxins []. The high virulence of some strains is thought to be due to the greater cytotoxic activity of CytK-1 compared to CytK-2, and to a high level of cytK expression []. Haemolysin BL and non-haemolytic enterotoxin production are both influenced by pH and micro []. This entry is found in cytotoxic proteins that form part of the enterotoxin complex and bind to erythrocytes. HblA is composed of a binding component, B, and two lytic components, L1 and L2. All three subunits act synergically to cause hemolysis.; GO: 0009405 pathogenesis, 0016020 membrane; PDB: 2NRJ_A.
Probab=22.31 E-value=3.2e+02 Score=20.05 Aligned_cols=48 Identities=8% Similarity=0.156 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHH
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNN 76 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~ 76 (104)
...-+.|...++.|+.....+..-+..++. -|+.|....++....+..
T Consensus 134 ~~f~~~l~~D~~~l~~~~~~l~~~l~~~~g-~I~~L~~~I~~~~~~I~~ 181 (184)
T PF05791_consen 134 NDFKDKLQKDSRNLKTDVDELQSILAGENG-DIPQLQKQIENLNEEIKK 181 (184)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHTT---HHHHHHHHHHHTGGG-G
T ss_pred HHHHHHHHHHHHHHHHhHHHHHHHHhcccC-CHHHHHHHHHHHHHHHHh
Confidence 334455666666666677777777766776 677777777666665544
No 102
>PF00509 Hemagglutinin: Haemagglutinin; InterPro: IPR001364 Haemagglutinin (HA) is one of two main surface fusion glycoproteins embedded in the envelope of influenza viruses, the other being neuraminidase (NA). There are sixteen known HA subtypes (H1-H16) and nine NA subtypes (N1-N9), which together are used to classify influenza viruses (e.g. H5N1). The antigenic variations in HA and NA enable the virus to evade host antibodies made to previous influenza strains, accounting for recurrent influenza epidemics []. The HA glycoprotein is present in the viral membrane as a single polypeptide (HA0), which must be cleaved by the host's trypsin-like proteases to produce two peptides (HA1 and HA2) in order for the virus to be infectious. Once HA0 is cleaved, the newly exposed N-terminal of the HA2 peptide then acts to fuse the viral envelope to the cellular membrane of the host cell, which allows the viral negative-stranded RNA to infect the host cell. The type of host protease can influence the infectivity and pathogenicity of the virus. The haemagglutinin glycoprotein is a trimer containing three structurally distinct regions: a globular head consisting of anti-parallel beta-sheets that form a beta-sandwich with a jelly-roll fold (contains the receptor binding site and the HA1/HA2 cleavage site); a triple-stranded, coiled-coil, alpha-helical stalk; and a globular foot composed of anti-parallel beta-sheets [, ]. Each monomer consists of an intact HA0 polypeptide with the HA1 and HA2 regions linked by disulphide bonds. The N terminus of HA1 provides the central strand in the 5-stranded globular foot, while the rest of the HA1 chain makes its way to the 8-stranded globular head. HA2 provides two alpha helices, which form part of the triple-stranded coiled-coil that stabilises the trimer, its C terminus providing the remaining strands of the 5-stranded globular foot. This entry represents the entire haemagglutinin protein (HA0) consisting of both the HA1 and HA2 regions, as found in influenza A and B viruses.; GO: 0046789 host cell surface receptor binding, 0019064 viral envelope fusion with host membrane, 0019031 viral envelope; PDB: 2WR5_A 2IBX_A 2WR0_B 2WR1_C 2XN9_F 2WRF_I 3S11_E 3BT6_A 3SM5_E 2FK0_H ....
Probab=21.41 E-value=3.4e+02 Score=24.21 Aligned_cols=64 Identities=20% Similarity=0.268 Sum_probs=42.3
Q ss_pred HHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhH--HHHhhccchHHHHHHHHHHHHhcCCchhhhhcceee
Q psy7549 28 EQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDD--DFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYK 101 (104)
Q Consensus 28 D~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~--~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~ 101 (104)
+.+++.|.++|.... -|-.-.|-+ ||--|++ +.|-+...+++-..|++++.+.-- ...|=-||-
T Consensus 402 e~Ri~~l~~~v~d~~------~d~wsynaE-LlVlleN~~tld~~Ds~~~~L~ekvk~qL~~na---~d~GnGCFe 467 (550)
T PF00509_consen 402 EKRIDNLEKKVDDKI------ADVWSYNAE-LLVLLENQRTLDLHDSNVNNLYEKVKRQLRENA---EDIGNGCFE 467 (550)
T ss_dssp GHHHHHHHHHHHHHH------HHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHGTGE---EEESSSEEE
T ss_pred HHHHHHHHHhhhccc------hhhhcccHH-HHHHhccccchhhhHHHHHHHHHHHHHHHhccc---hhcCCCcEE
Confidence 445566666655433 356667777 8887776 678888888898999988876322 244545553
No 103
>COG0422 ThiC Thiamine biosynthesis protein ThiC [Coenzyme metabolism]
Probab=21.23 E-value=37 Score=29.07 Aligned_cols=81 Identities=19% Similarity=0.183 Sum_probs=43.2
Q ss_pred CCCCCCCCCC-CCCCcchHHHhhHHHHHHHHHHHHHHHhhHH-------------HHHHHHHHhhHHHHh----------
Q psy7549 6 AGNYYEPVPN-QFDGGDAIHQENEQLTSDLRNKIQALKSLTI-------------DIGTEVKYQNEHLLR---------- 61 (104)
Q Consensus 6 ~~~~~~~~p~-~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi-------------~Ig~Ev~~Qn~~lLD---------- 61 (104)
+|++..|+-- -+++ +.|-- .|..|+.-+.+-..-++ +|..-++.|.+ +-+
T Consensus 222 LGDglRPG~i~DA~D----~aQ~~-EL~tlgeL~krA~~~gVQvmvEGPGHvpl~~I~~nv~l~k~-~c~~aPfYvLGPL 295 (432)
T COG0422 222 LGDGLRPGCIADAND----EAQFA-ELITLGELTKRAWEAGVQVMVEGPGHVPLNEIEANVKLQKE-LCDGAPFYVLGPL 295 (432)
T ss_pred ccCCCCCCcccCCcc----HHHHH-HHHHHHHHHHHHHHcCCEEEEECCCcCcHHHHHHHHHHHHH-hcCCCCeeeeCCc
Confidence 6777777322 2211 22322 34566666666555433 35555555554 322
Q ss_pred --hhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhcceeecC
Q psy7549 62 --GMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYKTP 103 (104)
Q Consensus 62 --~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~~ 103 (104)
++.-.+|.-.+-++.++.- ..|- .+.||+||
T Consensus 296 vTDIApGYDHItsAIGaA~aa-----~~Ga------d~LCYVTP 328 (432)
T COG0422 296 VTDIAPGYDHITSAIGAAMAA-----WAGA------DMLCYVTP 328 (432)
T ss_pred ccccCCCchHHHHHHHHHHHH-----hccC------ceEEecCc
Confidence 3444677766666666531 2222 68999999
No 104
>TIGR01386 cztS_silS_copS heavy metal sensor kinase. Members of this family contain a sensor histidine kinase domain (Pfam:PF00512) and a domain found in bacterial signal proteins (Pfam:PF00672). This group is separated phylogenetically from related proteins with similar architecture and contains a number of proteins associated with heavy metal resistance efflux systems for copper, silver, cadmium, and/or zinc.
Probab=21.17 E-value=3.9e+02 Score=20.77 Aligned_cols=33 Identities=18% Similarity=0.364 Sum_probs=26.6
Q ss_pred chHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHH
Q psy7549 21 DAIHQENEQLTSDLRNKIQALKSLTIDIGTEVK 53 (104)
Q Consensus 21 ~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~ 53 (104)
..|...-+...+.|...+..+++.+..+..|++
T Consensus 221 ~~l~~~~n~m~~~l~~~~~~~~~~~~~~~h~l~ 253 (457)
T TIGR01386 221 RELAQSFNAMLGRLEDAFQRLSQFSADLAHELR 253 (457)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhc
Confidence 456666677888888899999988888888876
No 105
>TIGR00190 thiC thiamine biosynthesis protein ThiC. The thiC ortholog is designated thiA in Bacillus subtilis.
Probab=20.93 E-value=37 Score=29.05 Aligned_cols=82 Identities=17% Similarity=0.199 Sum_probs=43.5
Q ss_pred CCCCCCCCCC-CCCCcchHHHhhHHHHHHHHHHHHHHHhhHH-------------HHHHHHHHhhHHHHh----------
Q psy7549 6 AGNYYEPVPN-QFDGGDAIHQENEQLTSDLRNKIQALKSLTI-------------DIGTEVKYQNEHLLR---------- 61 (104)
Q Consensus 6 ~~~~~~~~p~-~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi-------------~Ig~Ev~~Qn~~lLD---------- 61 (104)
+|++..|+-- -+ .+ +.|-. .+-.|+.-+.+-..-++ .|..-|+-|.+ +-+
T Consensus 221 LGDglRPG~i~DA--~D--~aQi~-El~~lgeL~~rA~e~gVQvMVEGPGHvPl~~I~~nv~lqK~-lc~~APfYvLGPL 294 (423)
T TIGR00190 221 LGDGLRPGCIADA--TD--RAQIS-ELITLGELVERAREADVQCMVEGPGHVPLDQIEANVRLQKE-LCDEAPFYVLGPL 294 (423)
T ss_pred ccCCcCCCccccC--Cc--HHHHH-HHHHHHHHHHHHHHcCCeEEEECCCCCcHHHHHHHHHHHHH-hhCCCCeeecCCc
Confidence 6777777322 11 11 22322 34567777777666543 34444555555 322
Q ss_pred --hhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhcceeecCC
Q psy7549 62 --GMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYKTPT 104 (104)
Q Consensus 62 --~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~~~ 104 (104)
++.-.+|...+-++++.. +..|- -|.||+||.
T Consensus 295 vTDiApGYDHItsAIGgAiA-----a~~GA------dfLCYVTPa 328 (423)
T TIGR00190 295 VTDIAPGYDHITSAIGAAIA-----GWAGA------DFLCYVTPK 328 (423)
T ss_pred ccccCCCchHHHHHHHHHHH-----HHcCC------CeEEecCcH
Confidence 334466766666666542 22222 489999993
No 106
>PF02315 MDH: Methanol dehydrogenase beta subunit; InterPro: IPR003420 Methanol dehydrogenase (MDH) (1.1.99.8 from EC), found in Gram-negative bacteria, is a pyrroloquinoline quinone (PQQ)-containing enzyme which oxidises methanol to formaldehyde. It is located in the periplasmic space and passes electrons derived from the oxidation of methanol to the soluble cytochrome cL []. The enzyme is a tetramer composed of two large alpha subunits and two smaller beta subunits. The alpha subunit binds the PQQ cofactor and contains the active site, while the function of the beta subunit is currently unknown []. The alpha subunit forms an eight-bladed propeller structure, with several novel tryptophan-docking motifs linking the individual blades together. This entry represents the beta subunit of methanol dehydrogenase.; GO: 0004022 alcohol dehydrogenase (NAD) activity, 0015946 methanol oxidation, 0055114 oxidation-reduction process; PDB: 1LRW_B 2D0V_J 2AD6_B 1G72_B 4AAH_D 2AD8_D 2AD7_D 1H4J_D 1H4I_B 1W6S_B ....
Probab=20.69 E-value=32 Score=23.62 Aligned_cols=7 Identities=57% Similarity=1.232 Sum_probs=3.3
Q ss_pred CCCCCCC
Q psy7549 6 AGNYYEP 12 (104)
Q Consensus 6 ~~~~~~~ 12 (104)
.||-|+|
T Consensus 46 aGSKYDP 52 (93)
T PF02315_consen 46 AGSKYDP 52 (93)
T ss_dssp TTSTT--
T ss_pred cccccCC
Confidence 4677777
No 107
>PF04100 Vps53_N: Vps53-like, N-terminal ; InterPro: IPR007234 Vps53 complexes with Vps52 and Vps54 to form a multi-subunit complex involved in regulating membrane trafficking events [].
Probab=20.47 E-value=2.7e+02 Score=22.96 Aligned_cols=67 Identities=13% Similarity=0.274 Sum_probs=39.0
Q ss_pred CCCCCCCcchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchHHHHHHHHHH
Q psy7549 13 VPNQFDGGDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLNNSMARVVLD 84 (104)
Q Consensus 13 ~p~~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~~t~~Rl~~m 84 (104)
+..-||+.+.|. +-|..+..|... ++++--.|...|+.|.. .=.+-..++..+...+..-+.++..+
T Consensus 10 in~lfp~e~SL~-~ld~~i~~l~~~---i~~ld~eI~~~v~~q~~-~~~~~~~~l~~a~~~i~~L~~~i~~i 76 (383)
T PF04100_consen 10 INELFPDEQSLS-NLDELIAKLRKE---IRELDEEIKELVREQSS-SGQDAEEDLEEAQEAIQELFEKISEI 76 (383)
T ss_pred HHHhCCChHHHH-hHHHHHHHHHHH---HHHHHHHHHHHHHHHhh-ccccccccHHHHHHHHHHHHHHHHHH
Confidence 445565555553 334455555444 35677788888888875 44444555666665555555555543
No 108
>PRK13352 thiamine biosynthesis protein ThiC; Provisional
Probab=20.30 E-value=38 Score=29.05 Aligned_cols=82 Identities=17% Similarity=0.229 Sum_probs=45.5
Q ss_pred CCCCCCCCCC-CCCCcchHHHhhHHHHHHHHHHHHHHHhhHH-------------HHHHHHHHhhHHHHh----------
Q psy7549 6 AGNYYEPVPN-QFDGGDAIHQENEQLTSDLRNKIQALKSLTI-------------DIGTEVKYQNEHLLR---------- 61 (104)
Q Consensus 6 ~~~~~~~~p~-~~~~~~~lE~qND~~ld~L~~kV~~LK~lsi-------------~Ig~Ev~~Qn~~lLD---------- 61 (104)
+|++..|+-- -+ .+ +.|-. .+-.|+.-+.+-..-++ +|..-|+-|.+ |-+
T Consensus 224 LGDglRPG~i~Da--~D--~aQi~-El~~lgeL~~RA~e~gVQvMVEGPGHvPl~~I~~nv~l~K~-lc~~APfYvLGPL 297 (431)
T PRK13352 224 LGDGLRPGCIADA--TD--RAQIQ-ELITLGELVKRAREAGVQVMVEGPGHVPLDQIEANVKLQKR-LCHGAPFYVLGPL 297 (431)
T ss_pred ccCCcCCCccccC--Cc--HHHHH-HHHHHHHHHHHHHHcCCeEEEECCCCCCHHHHHHHHHHHHH-hhCCCCceecCcc
Confidence 6777777322 11 11 22322 34567777777666543 35555555655 433
Q ss_pred --hhhHHHHhhccchHHHHHHHHHHHHhcCCchhhhhcceeecCC
Q psy7549 62 --GMDDDFDRTGGFLNNSMARVVLDIEKIKNPNIDRGLQTYKTPT 104 (104)
Q Consensus 62 --~l~~~fd~t~~~L~~t~~Rl~~m~~~~~n~~~~~~l~~~~~~~ 104 (104)
++.-.+|...+-+++++. +..|- -|.||+||.
T Consensus 298 vTDiApGYDHIt~AIGgAiA-----a~~GA------dfLCYVTPa 331 (431)
T PRK13352 298 VTDIAPGYDHITSAIGGAIA-----AAAGA------DFLCYVTPA 331 (431)
T ss_pred ccccCCCchHHHHHHHHHHH-----HhcCC------CeEEecChH
Confidence 234467777777776653 22222 589999993
No 109
>PRK10132 hypothetical protein; Provisional
Probab=20.03 E-value=3.1e+02 Score=18.92 Aligned_cols=56 Identities=14% Similarity=0.215 Sum_probs=31.1
Q ss_pred cchHHHhhHHHHHHHHHHHHHHHhhHHHHHHHHHHhhHHHHhhhhHHHHhhccchH
Q psy7549 20 GDAIHQENEQLTSDLRNKIQALKSLTIDIGTEVKYQNEHLLRGMDDDFDRTGGFLN 75 (104)
Q Consensus 20 ~~~lE~qND~~ld~L~~kV~~LK~lsi~Ig~Ev~~Qn~~lLD~l~~~fd~t~~~L~ 75 (104)
...+|+|-+.+.++|..-+..+..+--.-+++..++-..+=+.+...++.++.+|.
T Consensus 7 ~~~~~~q~e~L~~Dl~~L~~~le~ll~~~~~~~~~~~~~lR~r~~~~L~~ar~~l~ 62 (108)
T PRK10132 7 RNDVDDGVQDIQNDVNQLADSLESVLKSWGSDAKGEAEAARRKAQALLKETRARMH 62 (108)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 34577788888888888888886555444433333322133344444444444444
Done!