Query 034029
Match_columns 105
No_of_seqs 95 out of 97
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 08:59:37 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034029.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034029hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF01102 Glycophorin_A: Glycop 89.3 0.47 1E-05 34.6 3.3 36 13-49 59-94 (122)
2 PF02439 Adeno_E3_CR2: Adenovi 87.7 1.3 2.7E-05 26.8 3.8 30 21-50 7-36 (38)
3 PF07204 Orthoreo_P10: Orthore 86.0 0.52 1.1E-05 33.7 1.8 37 13-49 36-72 (98)
4 PF05283 MGC-24: Multi-glycosy 73.3 3.6 7.8E-05 32.0 2.8 22 20-41 161-182 (186)
5 PF04277 OAD_gamma: Oxaloaceta 73.0 3.3 7.2E-05 26.6 2.2 11 71-81 61-71 (79)
6 TIGR00847 ccoS cytochrome oxid 72.7 6.8 0.00015 24.7 3.5 23 19-41 3-25 (51)
7 TIGR00822 EII-Sor PTS system, 72.0 9.9 0.00022 30.8 5.2 27 18-44 205-235 (265)
8 PF15347 PAG: Phosphoprotein a 71.4 3.4 7.3E-05 35.9 2.5 23 22-44 17-39 (428)
9 PF13214 DUF4022: Protein of u 68.8 5.5 0.00012 27.3 2.6 16 25-40 8-23 (83)
10 PF03597 CcoS: Cytochrome oxid 68.5 9.8 0.00021 23.3 3.5 23 19-41 2-24 (45)
11 PF12273 RCR: Chitin synthesis 68.5 5.7 0.00012 28.0 2.8 10 33-42 12-21 (130)
12 PF11174 DUF2970: Protein of u 66.3 10 0.00022 24.1 3.4 19 16-34 28-46 (56)
13 PF05151 PsbM: Photosystem II 65.0 5.6 0.00012 23.1 1.8 14 30-43 6-19 (31)
14 PF15048 OSTbeta: Organic solu 63.7 8.6 0.00019 28.5 3.0 26 17-42 33-58 (125)
15 PRK13592 ubiA prenyltransferas 62.1 10 0.00022 31.4 3.5 29 16-44 232-261 (299)
16 PF02480 Herpes_gE: Alphaherpe 60.3 2.9 6.2E-05 35.9 0.0 17 10-26 342-358 (439)
17 PRK12785 fliL flagellar basal 60.2 8.7 0.00019 28.5 2.6 19 71-90 70-90 (166)
18 PRK09757 PTS system N-acetylga 59.8 14 0.00031 29.9 3.9 28 18-45 206-238 (267)
19 PF03229 Alpha_GJ: Alphavirus 59.0 29 0.00062 25.8 5.0 39 10-49 72-118 (126)
20 TIGR02976 phageshock_pspB phag 58.2 9.4 0.0002 25.7 2.2 29 21-49 3-31 (75)
21 PF10215 Ost4: Oligosaccaryltr 57.0 19 0.00041 21.2 3.1 18 23-40 7-24 (35)
22 CHL00080 psbM photosystem II p 55.7 12 0.00027 22.1 2.2 13 29-41 5-17 (34)
23 PF14575 EphA2_TM: Ephrin type 55.6 12 0.00026 24.7 2.3 24 26-49 7-30 (75)
24 PF01299 Lamp: Lysosome-associ 55.0 11 0.00023 30.2 2.4 27 22-49 275-301 (306)
25 TIGR03038 PS_II_psbM photosyst 54.0 14 0.0003 21.7 2.2 13 29-41 5-17 (33)
26 PF09928 DUF2160: Predicted sm 53.7 15 0.00033 25.8 2.7 22 14-35 3-24 (88)
27 PRK14094 psbM photosystem II r 53.6 13 0.00028 23.7 2.1 13 29-41 5-17 (50)
28 COG5416 Uncharacterized integr 52.8 20 0.00044 25.6 3.3 30 11-40 53-82 (98)
29 PF12273 RCR: Chitin synthesis 52.7 6.3 0.00014 27.8 0.7 20 28-47 4-23 (130)
30 PF11980 DUF3481: Domain of un 52.5 17 0.00037 25.5 2.8 20 21-40 18-37 (87)
31 PRK04989 psbM photosystem II r 50.7 16 0.00036 21.7 2.1 13 29-41 5-17 (35)
32 PF13295 DUF4077: Domain of un 49.0 6.8 0.00015 29.8 0.4 28 20-47 113-140 (175)
33 PF12911 OppC_N: N-terminal TM 48.8 22 0.00047 21.1 2.6 15 24-38 20-34 (56)
34 PF14914 LRRC37AB_C: LRRC37A/B 48.7 23 0.00051 27.1 3.3 28 22-49 121-151 (154)
35 PF01102 Glycophorin_A: Glycop 48.3 29 0.00063 25.3 3.6 32 22-53 70-101 (122)
36 PTZ00370 STEVOR; Provisional 48.1 21 0.00046 29.8 3.2 23 25-47 258-282 (296)
37 TIGR01478 STEVOR variant surfa 48.0 22 0.00047 29.8 3.2 23 25-47 262-286 (295)
38 PF15471 TMEM171: Transmembran 47.5 40 0.00087 28.4 4.7 69 27-97 166-235 (319)
39 PF05399 EVI2A: Ectropic viral 46.6 20 0.00043 29.0 2.7 18 26-43 128-145 (227)
40 PF06667 PspB: Phage shock pro 45.4 32 0.00069 23.2 3.2 28 21-48 3-30 (75)
41 PRK05419 putative sulfite oxid 45.2 31 0.00067 26.6 3.5 30 18-47 113-142 (205)
42 PF06596 PsbX: Photosystem II 44.3 39 0.00084 20.5 3.1 20 22-41 12-31 (39)
43 PHA02909 hypothetical protein; 43.7 28 0.00061 23.2 2.7 9 37-45 49-57 (72)
44 PHA03283 envelope glycoprotein 43.4 37 0.0008 30.6 4.1 26 19-44 397-424 (542)
45 PRK05696 fliL flagellar basal 43.1 92 0.002 22.9 5.7 20 71-90 71-90 (170)
46 PF06697 DUF1191: Protein of u 42.8 6 0.00013 32.6 -0.8 59 10-85 208-267 (278)
47 PF06305 DUF1049: Protein of u 42.7 47 0.001 20.3 3.5 30 11-40 10-40 (68)
48 PF09049 SNN_transmemb: Stanni 42.3 70 0.0015 18.7 4.3 27 16-45 6-33 (33)
49 COG4961 TadG Flp pilus assembl 42.3 27 0.00058 26.0 2.7 20 24-43 21-40 (185)
50 PF14241 DUF4341: Domain of un 41.2 44 0.00096 21.2 3.2 22 17-40 1-22 (62)
51 COG3715 ManY Phosphotransferas 40.3 87 0.0019 25.7 5.6 13 17-29 204-216 (265)
52 PF10873 DUF2668: Protein of u 40.1 30 0.00066 26.5 2.7 29 23-52 67-95 (155)
53 PF15330 SIT: SHP2-interacting 40.0 45 0.00098 23.6 3.5 26 23-48 3-28 (107)
54 PF07172 GRP: Glycine rich pro 39.9 30 0.00065 24.0 2.5 6 41-46 22-27 (95)
55 PF01998 DUF131: Protein of un 39.6 17 0.00036 23.9 1.1 25 17-41 32-59 (64)
56 PF14991 MLANA: Protein melan- 39.5 9.8 0.00021 28.0 0.0 19 30-48 32-50 (118)
57 PF02480 Herpes_gE: Alphaherpe 39.0 10 0.00022 32.6 0.0 42 9-50 345-386 (439)
58 PF05568 ASFV_J13L: African sw 38.6 46 0.001 26.0 3.5 21 27-47 37-57 (189)
59 PF15339 Afaf: Acrosome format 38.5 44 0.00096 26.5 3.5 23 21-43 131-153 (200)
60 PF05255 UPF0220: Uncharacteri 38.4 41 0.00089 25.4 3.2 26 21-46 102-127 (166)
61 PRK09458 pspB phage shock prot 37.9 35 0.00075 23.3 2.5 29 21-49 3-31 (75)
62 PF03381 CDC50: LEM3 (ligand-e 37.9 75 0.0016 25.4 4.8 35 13-47 239-273 (278)
63 PRK07021 fliL flagellar basal 37.0 1.5E+02 0.0032 21.7 5.9 19 71-90 63-82 (162)
64 PTZ00260 dolichyl-phosphate be 36.2 1.7E+02 0.0036 23.6 6.6 15 71-85 67-81 (333)
65 KOG3626 Organic anion transpor 35.3 98 0.0021 28.8 5.6 27 20-46 673-699 (735)
66 PHA00736 hypothetical protein 34.6 36 0.00079 23.2 2.2 14 22-35 57-70 (79)
67 PF13807 GNVR: G-rich domain o 34.6 80 0.0017 20.3 3.8 19 16-34 54-72 (82)
68 PF12606 RELT: Tumour necrosis 34.6 1.2E+02 0.0026 19.0 4.7 21 33-53 12-32 (50)
69 COG4594 FecB ABC-type Fe3+-cit 34.3 83 0.0018 26.5 4.6 20 26-45 6-25 (310)
70 PRK13726 conjugal transfer pil 34.0 83 0.0018 24.1 4.3 34 16-49 7-43 (188)
71 PF10883 DUF2681: Protein of u 33.5 50 0.0011 22.9 2.8 20 29-48 7-26 (87)
72 PF06103 DUF948: Bacterial pro 33.5 40 0.00088 22.0 2.2 12 32-43 5-16 (90)
73 PF15240 Pro-rich: Proline-ric 33.4 29 0.00064 27.0 1.8 13 29-41 2-14 (179)
74 cd02435 CCC1 CCC1. CCC1: This 32.6 76 0.0017 25.1 4.0 30 19-48 173-207 (241)
75 PF12048 DUF3530: Protein of u 32.5 66 0.0014 25.9 3.7 16 73-90 61-76 (310)
76 PF01794 Ferric_reduct: Ferric 32.5 98 0.0021 20.1 4.0 27 18-44 76-102 (125)
77 PF10826 DUF2551: Protein of u 32.5 35 0.00076 23.7 1.8 18 24-41 44-61 (83)
78 PF04906 Tweety: Tweety; Inte 32.4 90 0.002 26.4 4.6 12 32-43 371-382 (406)
79 PF11143 DUF2919: Protein of u 31.9 58 0.0013 24.2 3.1 23 25-48 57-79 (149)
80 PF04976 DmsC: DMSO reductase 31.6 75 0.0016 25.1 3.8 28 10-37 140-168 (276)
81 COG4736 CcoQ Cbb3-type cytochr 31.6 92 0.002 20.3 3.6 27 22-48 5-31 (60)
82 PF06800 Sugar_transport: Suga 31.5 61 0.0013 26.4 3.4 32 12-47 94-125 (269)
83 PF02411 MerT: MerT mercuric t 31.4 97 0.0021 22.2 4.0 18 32-49 54-71 (116)
84 PF13903 Claudin_2: PMP-22/EMP 31.1 83 0.0018 21.5 3.6 25 22-46 73-97 (172)
85 PLN00085 photosystem II reacti 30.5 43 0.00094 25.3 2.2 14 29-42 82-95 (149)
86 PF05454 DAG1: Dystroglycan (D 30.2 17 0.00037 30.0 0.0 13 37-49 164-176 (290)
87 PF11353 DUF3153: Protein of u 29.4 57 0.0012 24.8 2.7 7 10-16 177-183 (209)
88 PRK10081 entericidin B membran 28.9 71 0.0015 20.1 2.6 21 26-46 6-26 (48)
89 PF10717 ODV-E18: Occlusion-de 28.0 1E+02 0.0022 21.5 3.5 10 32-41 34-43 (85)
90 PRK10884 SH3 domain-containing 27.9 54 0.0012 25.5 2.4 17 21-38 174-190 (206)
91 TIGR03363 VI_chp_8 type VI sec 27.7 30 0.00064 28.5 1.0 9 16-24 313-321 (353)
92 PRK15065 PTS system mannose-sp 27.5 1E+02 0.0022 25.0 4.0 27 18-44 206-236 (262)
93 TIGR03054 photo_alph_chp1 puta 27.3 1.4E+02 0.003 22.2 4.3 25 25-49 3-27 (135)
94 cd01059 CCC1_like CCC1-related 27.1 1.3E+02 0.0028 21.5 4.1 30 19-48 79-114 (143)
95 PF04133 Vps55: Vacuolar prote 26.9 72 0.0016 23.0 2.8 18 30-47 7-24 (120)
96 PLN00090 photosystem II reacti 26.7 57 0.0012 23.7 2.2 12 29-40 75-86 (113)
97 CHL00066 psbH photosystem II p 26.6 94 0.002 21.2 3.1 21 26-46 43-63 (73)
98 PF07589 VPEP: PEP-CTERM motif 26.4 90 0.0019 16.7 2.4 11 32-42 10-20 (25)
99 PF12259 DUF3609: Protein of u 26.3 48 0.001 27.9 2.0 23 26-49 303-325 (361)
100 PF05915 DUF872: Eukaryotic pr 25.9 1.7E+02 0.0037 20.9 4.5 27 19-45 39-65 (115)
101 PF13623 SurA_N_2: SurA N-term 25.9 1.2E+02 0.0025 22.2 3.8 18 28-45 10-27 (145)
102 KOG0499 Cyclic nucleotide-gate 25.3 76 0.0016 29.7 3.2 32 9-40 418-449 (815)
103 PF01034 Syndecan: Syndecan do 25.3 29 0.00063 23.0 0.4 12 33-44 24-35 (64)
104 PF01594 UPF0118: Domain of un 25.1 1.1E+02 0.0024 23.5 3.7 26 21-46 302-327 (327)
105 TIGR03007 pepcterm_ChnLen poly 25.1 1.3E+02 0.0028 25.2 4.3 30 18-47 411-440 (498)
106 PF15345 TMEM51: Transmembrane 25.0 38 0.00082 27.5 1.1 30 12-41 53-82 (233)
107 PTZ00201 amastin surface glyco 24.6 1.4E+02 0.003 23.2 4.2 25 21-45 153-177 (192)
108 PF06387 Calcyon: D1 dopamine 24.4 57 0.0012 25.7 2.0 14 30-43 85-98 (186)
109 TIGR01167 LPXTG_anchor LPXTG-m 24.4 1.2E+02 0.0025 16.2 2.8 7 20-26 12-18 (34)
110 PF04964 Flp_Fap: Flp/Fap pili 24.2 72 0.0016 19.1 2.0 13 27-39 14-26 (46)
111 PHA03231 glycoprotein BALF4; P 24.0 69 0.0015 30.2 2.7 24 23-46 704-727 (829)
112 TIGR02830 spore_III_AG stage I 23.7 72 0.0016 24.7 2.4 17 26-42 5-21 (186)
113 PRK02624 psbH photosystem II r 23.5 1.2E+02 0.0026 20.2 3.1 21 26-46 31-51 (64)
114 PRK13792 lysozyme inhibitor; P 23.5 42 0.00091 24.6 1.0 22 27-48 4-25 (127)
115 PF13908 Shisa: Wnt and FGF in 23.3 36 0.00077 25.0 0.6 24 16-39 70-95 (179)
116 cd02434 Nodulin-21_like_3 Nodu 22.8 1.2E+02 0.0027 23.5 3.6 21 27-47 173-194 (225)
117 cd02437 CCC1_like_1 CCC1-relat 22.7 1.7E+02 0.0036 21.6 4.1 16 33-48 131-146 (175)
118 COG4885 Uncharacterized protei 22.5 76 0.0016 26.7 2.4 23 25-47 289-311 (312)
119 PF15470 DUF4637: Domain of un 22.5 23 0.00049 27.4 -0.5 19 9-28 89-107 (173)
120 cd04821 PA_M28_1_2 PA_M28_1_2: 22.5 64 0.0014 24.1 1.9 16 68-83 44-59 (157)
121 PRK11486 flagellar biosynthesi 22.4 2.7E+02 0.0059 20.3 5.1 16 69-84 61-76 (124)
122 cd01324 cbb3_Oxidase_CcoQ Cyto 22.4 2E+02 0.0042 17.5 4.0 28 22-49 6-36 (48)
123 COG3847 Flp Flp pilus assembly 22.3 86 0.0019 20.4 2.2 14 27-40 21-34 (58)
124 TIGR03501 gamma_C_targ gammapr 22.2 1E+02 0.0023 16.9 2.2 17 30-46 5-21 (26)
125 PF11153 DUF2931: Protein of u 22.2 72 0.0016 24.1 2.1 19 31-49 5-23 (216)
126 PF10577 UPF0560: Uncharacteri 22.2 1.2E+02 0.0026 28.8 3.8 24 20-43 273-296 (807)
127 PLN00055 photosystem II reacti 21.8 1.3E+02 0.0028 20.5 3.1 21 26-46 43-63 (73)
128 TIGR03750 conj_TIGR03750 conju 21.8 1.6E+02 0.0034 21.2 3.7 28 19-46 41-70 (111)
129 PF00822 PMP22_Claudin: PMP-22 21.5 1.6E+02 0.0034 20.3 3.6 30 22-51 3-34 (166)
130 PF06716 DUF1201: Protein of u 21.4 1.7E+02 0.0038 18.7 3.4 27 20-46 7-34 (54)
131 cd02433 Nodulin-21_like_2 Nodu 21.2 1.9E+02 0.0041 22.8 4.3 27 20-46 171-202 (234)
132 cd07387 MPP_PolD2_C PolD2 (DNA 20.6 60 0.0013 26.0 1.4 16 77-92 97-112 (257)
133 PHA02337 putative high light i 20.6 2E+02 0.0043 17.0 3.7 21 19-40 4-24 (35)
134 PF09680 Tiny_TM_bacill: Prote 20.4 68 0.0015 17.6 1.2 19 25-44 5-23 (24)
135 PRK13415 flagella biosynthesis 20.2 1.8E+02 0.0039 23.3 4.1 25 9-35 60-84 (219)
136 COG3197 FixS Uncharacterized p 20.1 1.3E+02 0.0028 19.7 2.6 19 20-38 4-22 (58)
No 1
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=89.33 E-value=0.47 Score=34.55 Aligned_cols=36 Identities=14% Similarity=0.250 Sum_probs=24.1
Q ss_pred ccccCchHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 13 DLWHSPIPYLFTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 13 ~~W~SPvPYLFgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
..+..|+= ....|++|.|+|++.|||+-|-+|+...
T Consensus 59 h~fs~~~i-~~Ii~gv~aGvIg~Illi~y~irR~~Kk 94 (122)
T PF01102_consen 59 HRFSEPAI-IGIIFGVMAGVIGIILLISYCIRRLRKK 94 (122)
T ss_dssp SSSS-TCH-HHHHHHHHHHHHHHHHHHHHHHHHHS--
T ss_pred cCccccce-eehhHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 34555542 4456889999999999998888765533
No 2
>PF02439 Adeno_E3_CR2: Adenovirus E3 region protein CR2; InterPro: IPR003470 Early region 3 (E3) of human adenoviruses (Ads) codes for proteins that appear to control viral interactions with the host []. This region called CR1 (conserved region 1) [] is found three times in Human adenovirus 19 (a subgroup D adenovirus) 49 kDa protein in the E3 region. CR1 is also found in the 20.1 Kd protein of subgroup B adenoviruses. The function of this 80 amino acid region is unknown. This region is probably a divergent immunoglobulin domain.
Probab=87.72 E-value=1.3 Score=26.82 Aligned_cols=30 Identities=13% Similarity=0.443 Sum_probs=24.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHKRYSN 50 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K~~s~ 50 (105)
-...|..+-+.+|.+..++-+|-|||...+
T Consensus 7 aIIv~V~vg~~iiii~~~~YaCcykk~~~~ 36 (38)
T PF02439_consen 7 AIIVAVVVGMAIIIICMFYYACCYKKHRRQ 36 (38)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHcccccc
Confidence 356777888888888989999999997643
No 3
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=85.97 E-value=0.52 Score=33.67 Aligned_cols=37 Identities=32% Similarity=0.408 Sum_probs=29.1
Q ss_pred ccccCchHHHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 13 DLWHSPIPYLFTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 13 ~~W~SPvPYLFgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
+..-+=.|||-+|=+++|.||-++|+.-.|.+||.+.
T Consensus 36 S~~~ayWpyLA~GGG~iLilIii~Lv~CC~~K~K~~~ 72 (98)
T PF07204_consen 36 SSFVAYWPYLAAGGGLILILIIIALVCCCRAKHKTSA 72 (98)
T ss_pred ehHHhhhHHhhccchhhhHHHHHHHHHHhhhhhhhHh
Confidence 3455567999999898888888888887888888543
No 4
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=73.26 E-value=3.6 Score=31.96 Aligned_cols=22 Identities=18% Similarity=0.329 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 034029 20 PYLFTSLALVLVLIAVALVLLL 41 (105)
Q Consensus 20 PYLFgGLA~MlgLIAvALliLa 41 (105)
.-++||+.+.|||+||+++++-
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~K 182 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYK 182 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhh
Confidence 3489999999999999887753
No 5
>PF04277 OAD_gamma: Oxaloacetate decarboxylase, gamma chain ; InterPro: IPR005899 This family comprises distantly related, low complexity, hydrophobic small subunits of several related sodium ion-pumping decarboxylases. These include oxaloacetate decarboxylase gamma subunit and methylmalonyl-CoA decarboxylase delta subunit [].; GO: 0008948 oxaloacetate decarboxylase activity, 0015081 sodium ion transmembrane transporter activity, 0071436 sodium ion export, 0016020 membrane
Probab=73.05 E-value=3.3 Score=26.56 Aligned_cols=11 Identities=36% Similarity=0.311 Sum_probs=6.6
Q ss_pred CCCCeEEEEec
Q 034029 71 DPEPKVVVIMA 81 (105)
Q Consensus 71 ~~e~kivVIMA 81 (105)
+.++.+.||+|
T Consensus 61 ~~~~~vAaI~A 71 (79)
T PF04277_consen 61 DDPELVAAIAA 71 (79)
T ss_pred CChHHHHHHHH
Confidence 55566666654
No 6
>TIGR00847 ccoS cytochrome oxidase maturation protein, cbb3-type. CcoS from Rhodobacter capsulatus has been shown essential for incorporation of redox-active prosthetic groups (heme, Cu) into cytochrome cbb(3) oxidase. FixS of Bradyrhizobium japonicum appears to have the same function. Members of this family are found so far in organisms with a cbb3-type cytochrome oxidase, including Neisseria meningitidis, Helicobacter pylori, Campylobacter jejuni, Caulobacter crescentus, Bradyrhizobium japonicum, and Rhodobacter capsulatus.
Probab=72.68 E-value=6.8 Score=24.72 Aligned_cols=23 Identities=17% Similarity=0.234 Sum_probs=18.5
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 034029 19 IPYLFTSLALVLVLIAVALVLLL 41 (105)
Q Consensus 19 vPYLFgGLA~MlgLIAvALliLa 41 (105)
+-|+..++++++|+++++.++.+
T Consensus 3 il~~LIpiSl~l~~~~l~~f~Wa 25 (51)
T TIGR00847 3 ILTILIPISLLLGGVGLVAFLWS 25 (51)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Confidence 45888899999998888777765
No 7
>TIGR00822 EII-Sor PTS system, mannose/fructose/sorbose family, IIC component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Man (PTS splinter group) family is unique in several respects among PTS permease families. It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this family can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the sorbose-specific IIC subunits of this family of PTS transporters.
Probab=72.01 E-value=9.9 Score=30.82 Aligned_cols=27 Identities=11% Similarity=0.193 Sum_probs=18.0
Q ss_pred chHHHHHHHHHHHHH----HHHHHHHHHHhh
Q 034029 18 PIPYLFTSLALVLVL----IAVALVLLLCSY 44 (105)
Q Consensus 18 PvPYLFgGLA~MlgL----IAvALliLaCSy 44 (105)
=.||+|.|+.++--| |++|++-+++.+
T Consensus 205 ~~~ff~lGF~laayl~l~~l~iAiig~~~A~ 235 (265)
T TIGR00822 205 LMPFFYLGFLFAAYTDFSLLAFGAVGGAGAL 235 (265)
T ss_pred hHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence 379999999876443 666665554444
No 8
>PF15347 PAG: Phosphoprotein associated with glycosphingolipid-enriched
Probab=71.39 E-value=3.4 Score=35.94 Aligned_cols=23 Identities=35% Similarity=0.699 Sum_probs=20.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhh
Q 034029 22 LFTSLALVLVLIAVALVLLLCSY 44 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLaCSy 44 (105)
|.|+||++-.++-|.+||+.||-
T Consensus 17 lwgsLaav~~f~lis~LifLCsS 39 (428)
T PF15347_consen 17 LWGSLAAVTTFLLISFLIFLCSS 39 (428)
T ss_pred eehHHHHHHHHHHHHHHHHHhhc
Confidence 67899999888888899999886
No 9
>PF13214 DUF4022: Protein of unknown function (DUF4022)
Probab=68.79 E-value=5.5 Score=27.34 Aligned_cols=16 Identities=25% Similarity=0.532 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 034029 25 SLALVLVLIAVALVLL 40 (105)
Q Consensus 25 GLA~MlgLIAvALliL 40 (105)
|.--+|.++.+||++|
T Consensus 8 gm~~imsistlallll 23 (83)
T PF13214_consen 8 GMNHIMSISTLALLLL 23 (83)
T ss_pred chhHHHHHHHHHHHHH
Confidence 4444555566666555
No 10
>PF03597 CcoS: Cytochrome oxidase maturation protein cbb3-type; InterPro: IPR004714 Cytochrome cbb3 oxidases are found almost exclusively in Proteobacteria, and represent a distinctive class of proton-pumping respiratory haem-copper oxidases (HCO) that lack many of the key structural features that contribute to the reaction cycle of the intensely studied mitochondrial cytochrome c oxidase (CcO). Expression of cytochrome cbb3 oxidase allows human pathogens to colonise anoxic tissues and agronomically important diazotrophs to sustain nitrogen fixation []. Genes encoding a cytochrome cbb3 oxidase were initially designated fixNOQP (ccoNOQP), the ccoNOQP operon is always found close to a second gene cluster, known as fixGHIS (ccoGHIS) whose expression is necessary for the assembly of a functional cbb3 oxidase. On the basis of their derived amino acid sequences each of the four proteins encoded by the ccoGHIS operon are thought to be membrane-bound. It has been suggested that they may function in concert as a multi-subunit complex, possibly playing a role in the uptake and metabolism of copper required for the assembly of the binuclear centre of cytochrome cbb3 oxidase.
Probab=68.54 E-value=9.8 Score=23.29 Aligned_cols=23 Identities=39% Similarity=0.586 Sum_probs=17.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHH
Q 034029 19 IPYLFTSLALVLVLIAVALVLLL 41 (105)
Q Consensus 19 vPYLFgGLA~MlgLIAvALliLa 41 (105)
+-|+..++++++|+++++.++.+
T Consensus 2 ~l~~lip~sl~l~~~~l~~f~Wa 24 (45)
T PF03597_consen 2 ILYILIPVSLILGLIALAAFLWA 24 (45)
T ss_pred chhHHHHHHHHHHHHHHHHHHHH
Confidence 35788888888888887777665
No 11
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=68.45 E-value=5.7 Score=28.02 Aligned_cols=10 Identities=40% Similarity=0.796 Sum_probs=3.9
Q ss_pred HHHHHHHHHH
Q 034029 33 IAVALVLLLC 42 (105)
Q Consensus 33 IAvALliLaC 42 (105)
|.|.|++..|
T Consensus 12 i~l~~~~~~~ 21 (130)
T PF12273_consen 12 ILLFLFLFYC 21 (130)
T ss_pred HHHHHHHHHH
Confidence 3333333344
No 12
>PF11174 DUF2970: Protein of unknown function (DUF2970); InterPro: IPR021344 This short family is conserved in Proteobacteria. The function is not known.
Probab=66.34 E-value=10 Score=24.14 Aligned_cols=19 Identities=21% Similarity=0.595 Sum_probs=14.4
Q ss_pred cCchHHHHHHHHHHHHHHH
Q 034029 16 HSPIPYLFTSLALVLVLIA 34 (105)
Q Consensus 16 ~SPvPYLFgGLA~MlgLIA 34 (105)
.+|.||++.|+.+.+.+|+
T Consensus 28 ~~p~~~Ii~gii~~~~fV~ 46 (56)
T PF11174_consen 28 GSPVHFIIVGIILAALFVA 46 (56)
T ss_pred CCCchHHHHHHHHHHHHHH
Confidence 5799999999876665554
No 13
>PF05151 PsbM: Photosystem II reaction centre M protein (PsbM); InterPro: IPR007826 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. This family represents the low molecular weight transmembrane protein PsbM found in PSII. PsbM is one of the most hydrophobic proteins in the thylakoid membrane. The function of this protein is unknown.; GO: 0015979 photosynthesis, 0019684 photosynthesis, light reaction, 0009523 photosystem II, 0016021 integral to membrane; PDB: 3A0H_m 3ARC_m 3A0B_M 3PRR_M 3PRQ_M 1S5L_M 4FBY_e 3BZ2_M 3BZ1_M 2AXT_M ....
Probab=64.97 E-value=5.6 Score=23.07 Aligned_cols=14 Identities=43% Similarity=0.643 Sum_probs=10.0
Q ss_pred HHHHHHHHHHHHHh
Q 034029 30 LVLIAVALVLLLCS 43 (105)
Q Consensus 30 lgLIAvALliLaCS 43 (105)
+|+||.||.|+.++
T Consensus 6 l~fiAtaLfi~iPt 19 (31)
T PF05151_consen 6 LAFIATALFILIPT 19 (31)
T ss_dssp THHHHHHHHHHHHH
T ss_pred hhHHHHHHHHHHHH
Confidence 57778888777654
No 14
>PF15048 OSTbeta: Organic solute transporter subunit beta protein
Probab=63.75 E-value=8.6 Score=28.49 Aligned_cols=26 Identities=23% Similarity=0.356 Sum_probs=21.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHHHH
Q 034029 17 SPIPYLFTSLALVLVLIAVALVLLLC 42 (105)
Q Consensus 17 SPvPYLFgGLA~MlgLIAvALliLaC 42 (105)
||--|-..+|+++..+|+|.||...=
T Consensus 33 tpWNysiL~Ls~vvlvi~~~LLgrsi 58 (125)
T PF15048_consen 33 TPWNYSILALSFVVLVISFFLLGRSI 58 (125)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHh
Confidence 45569999999999999999987643
No 15
>PRK13592 ubiA prenyltransferase; Provisional
Probab=62.10 E-value=10 Score=31.40 Aligned_cols=29 Identities=7% Similarity=0.126 Sum_probs=23.1
Q ss_pred cCchHHH-HHHHHHHHHHHHHHHHHHHHhh
Q 034029 16 HSPIPYL-FTSLALVLVLIAVALVLLLCSY 44 (105)
Q Consensus 16 ~SPvPYL-FgGLA~MlgLIAvALliLaCSy 44 (105)
-||.||+ ++.++..+.+++.++++++|..
T Consensus 232 ~s~lp~~~~g~~g~~~l~~~~~~~l~~~~~ 261 (299)
T PRK13592 232 TNFALLWNISHVGVVVLVLNVIWMTVQFEQ 261 (299)
T ss_pred HhhHHHHHhhhhHHHHHHHHHHHHHHHHHH
Confidence 4789999 8877777777888888888863
No 16
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=60.30 E-value=2.9 Score=35.88 Aligned_cols=17 Identities=24% Similarity=0.087 Sum_probs=0.0
Q ss_pred CCcccccCchHHHHHHH
Q 034029 10 APIDLWHSPIPYLFTSL 26 (105)
Q Consensus 10 ~~~~~W~SPvPYLFgGL 26 (105)
++...|.++.-.+.+++
T Consensus 342 ~~p~~~~~~~~~~l~vV 358 (439)
T PF02480_consen 342 APPSPRTSRGAALLGVV 358 (439)
T ss_dssp -----------------
T ss_pred CCCCCCCCcccchHHHH
Confidence 33345666655555554
No 17
>PRK12785 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=60.17 E-value=8.7 Score=28.53 Aligned_cols=19 Identities=37% Similarity=0.553 Sum_probs=13.3
Q ss_pred CCCCeEEEEecCCCC--Cccce
Q 034029 71 DPEPKVVVIMAGDDK--PRYLA 90 (105)
Q Consensus 71 ~~e~kivVIMAGd~~--PTfLA 90 (105)
+.++ |+|=+++++. ..||-
T Consensus 70 ~l~~-fvVNL~~~~~~~~ryLk 90 (166)
T PRK12785 70 DVPD-MLVNLAGDPGERVQYLK 90 (166)
T ss_pred EcCC-EEEECCCCCCCcceEEE
Confidence 4444 9999988753 68874
No 18
>PRK09757 PTS system N-acetylgalactosamine-specific transporter subunit IIC; Provisional
Probab=59.82 E-value=14 Score=29.85 Aligned_cols=28 Identities=29% Similarity=0.397 Sum_probs=18.8
Q ss_pred chHHHHHHHHHH--HH---HHHHHHHHHHHhhc
Q 034029 18 PIPYLFTSLALV--LV---LIAVALVLLLCSYH 45 (105)
Q Consensus 18 PvPYLFgGLA~M--lg---LIAvALliLaCSy~ 45 (105)
=.||+|.|+.+. ++ +|++|++-+++.+.
T Consensus 206 ~~~ff~lGF~l~ayl~~~~~i~iaiig~~iA~~ 238 (267)
T PRK09757 206 YIPYLIAGFLFVCYIQVSNLLPVAVLGAGFAVY 238 (267)
T ss_pred hHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHH
Confidence 379999998764 22 47777766655553
No 19
>PF03229 Alpha_GJ: Alphavirus glycoprotein J; InterPro: IPR004913 The exact function of the herpesvirus glycoprotein J is unknown, but it appears to play a role in the inhibition of apotosis of the host cell [].; GO: 0019050 suppression by virus of host apoptosis
Probab=58.99 E-value=29 Score=25.84 Aligned_cols=39 Identities=28% Similarity=0.360 Sum_probs=21.3
Q ss_pred CCcccccCc-----hHHHHHHHHHHHHHHHH---HHHHHHHhhcccCC
Q 034029 10 APIDLWHSP-----IPYLFTSLALVLVLIAV---ALVLLLCSYHKRYS 49 (105)
Q Consensus 10 ~~~~~W~SP-----vPYLFgGLA~MlgLIAv---ALliLaCSy~K~~s 49 (105)
.+..+|.+| +|-++|||.+. .|+++ +||==.|-+|-++.
T Consensus 72 a~~sp~ps~p~d~aLp~VIGGLcaL-~LaamGA~~LLrR~cRr~arrR 118 (126)
T PF03229_consen 72 ASSSPGPSPPVDFALPLVIGGLCAL-TLAAMGAGALLRRCCRRAARRR 118 (126)
T ss_pred CCCCCCCCCCcccchhhhhhHHHHH-HHHHHHHHHHHHHHHHHHHHhh
Confidence 334566665 57788888764 33333 33333666655443
No 20
>TIGR02976 phageshock_pspB phage shock protein B. This model describes the PspB protein of the psp (phage shock protein) operon, as found in Escherichia coli and many related species. Expression of a phage protein called secretin protein IV, and a number of other stresses including ethanol, heat shock, and defects in protein secretion trigger sigma-54-dependent expression of the phage shock regulon. PspB is both a regulator and an effector protein of the phage shock response.
Probab=58.23 E-value=9.4 Score=25.67 Aligned_cols=29 Identities=24% Similarity=0.505 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
+.|..+-+++++|-||.+-|..-|++...
T Consensus 3 ~~fl~~Pliif~ifVap~wl~lHY~~k~~ 31 (75)
T TIGR02976 3 IFFLAIPLIIFVIFVAPLWLILHYRSKRK 31 (75)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHhhhc
Confidence 45777777788888888888888875433
No 21
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=57.00 E-value=19 Score=21.18 Aligned_cols=18 Identities=33% Similarity=0.442 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034029 23 FTSLALVLVLIAVALVLL 40 (105)
Q Consensus 23 FgGLA~MlgLIAvALliL 40 (105)
...||..||+.++.|+|+
T Consensus 7 L~~lan~lG~~~~~LIVl 24 (35)
T PF10215_consen 7 LYTLANFLGVAAMVLIVL 24 (35)
T ss_dssp HHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 346788889988888886
No 22
>CHL00080 psbM photosystem II protein M
Probab=55.70 E-value=12 Score=22.08 Aligned_cols=13 Identities=46% Similarity=0.787 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLL 41 (105)
Q Consensus 29 MlgLIAvALliLa 41 (105)
.+|+||.+|.|+.
T Consensus 5 ~lgfiAt~LFi~i 17 (34)
T CHL00080 5 ILAFIATALFILV 17 (34)
T ss_pred HHHHHHHHHHHHH
Confidence 3677777777664
No 23
>PF14575 EphA2_TM: Ephrin type-A receptor 2 transmembrane domain; PDB: 3KUL_A 2XVD_A 2VX1_A 2VWV_A 2VX0_A 2VWY_A 2VWZ_A 2VWW_A 2VWU_A 2VWX_A ....
Probab=55.62 E-value=12 Score=24.74 Aligned_cols=24 Identities=25% Similarity=0.642 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCC
Q 034029 26 LALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K~~s 49 (105)
++.++.|+++.++++.|.+++..+
T Consensus 7 ~~g~~~ll~~v~~~~~~~rr~~~~ 30 (75)
T PF14575_consen 7 IVGVLLLLVLVIIVIVCFRRCKYS 30 (75)
T ss_dssp HHHHHHHHHHHHHHHCCCTT----
T ss_pred HHHHHHHHHhheeEEEEEeeEcCC
Confidence 444555555666667777666533
No 24
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=55.01 E-value=11 Score=30.16 Aligned_cols=27 Identities=19% Similarity=0.255 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 22 LFTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
+..|+++ .|||.+.|+.-.+.|||.+.
T Consensus 275 IaVG~~L-a~lvlivLiaYli~Rrr~~~ 301 (306)
T PF01299_consen 275 IAVGAAL-AGLVLIVLIAYLIGRRRSRA 301 (306)
T ss_pred HHHHHHH-HHHHHHHHHhheeEeccccc
Confidence 3455443 56666777777777777654
No 25
>TIGR03038 PS_II_psbM photosystem II reaction center protein PsbM. Members of this protein family are the photosystem II reaction center M protein, product of the psbM gene, in Cyanobacteria and their derived organelles in plants. This model resembles Pfam model pfam05151 but has cutoffs set to avoid false-positive matches to similar (not necessarily homologous) sequences in species that are not photosynthetic.
Probab=53.96 E-value=14 Score=21.74 Aligned_cols=13 Identities=38% Similarity=0.608 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLL 41 (105)
Q Consensus 29 MlgLIAvALliLa 41 (105)
.+|+||.||.|+.
T Consensus 5 ~l~fiAt~Lfi~i 17 (33)
T TIGR03038 5 ILGFIATLLFILV 17 (33)
T ss_pred HHHHHHHHHHHHH
Confidence 3567777776663
No 26
>PF09928 DUF2160: Predicted small integral membrane protein (DUF2160); InterPro: IPR018678 The members of this family of hypothetical prokaryotic proteins have no known function. It is thought that they are transmembrane proteins, but their function has not been inferred yet.
Probab=53.66 E-value=15 Score=25.77 Aligned_cols=22 Identities=32% Similarity=0.629 Sum_probs=18.4
Q ss_pred cccCchHHHHHHHHHHHHHHHH
Q 034029 14 LWHSPIPYLFTSLALVLVLIAV 35 (105)
Q Consensus 14 ~W~SPvPYLFgGLA~MlgLIAv 35 (105)
.|..|+--.|+++++||+..++
T Consensus 3 aWT~ptA~FF~~I~~~L~~mtv 24 (88)
T PF09928_consen 3 AWTWPTAIFFICIALMLAGMTV 24 (88)
T ss_pred CcchHHHHHHHHHHHHHHHHHH
Confidence 3899999999999998877654
No 27
>PRK14094 psbM photosystem II reaction center protein M; Provisional
Probab=53.61 E-value=13 Score=23.66 Aligned_cols=13 Identities=15% Similarity=0.133 Sum_probs=8.4
Q ss_pred HHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLL 41 (105)
Q Consensus 29 MlgLIAvALliLa 41 (105)
.||+||.||.|+.
T Consensus 5 ~lgfiAtaLFi~i 17 (50)
T PRK14094 5 NFGFVASLLFVGV 17 (50)
T ss_pred HHHHHHHHHHHHH
Confidence 3667777776664
No 28
>COG5416 Uncharacterized integral membrane protein [Function unknown]
Probab=52.79 E-value=20 Score=25.61 Aligned_cols=30 Identities=23% Similarity=0.316 Sum_probs=25.2
Q ss_pred CcccccCchHHHHHHHHHHHHHHHHHHHHH
Q 034029 11 PIDLWHSPIPYLFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 11 ~~~~W~SPvPYLFgGLA~MlgLIAvALliL 40 (105)
-+++|+=|.=-.+.|-++|-+||++.+.+-
T Consensus 53 lfg~~~~PLilvil~s~v~G~Li~~~~~~~ 82 (98)
T COG5416 53 LFGQWELPLILVILGAAVVGALIAMFAGIA 82 (98)
T ss_pred ecchhhhhHHHHHHHHHHHHHHHHHHHhHH
Confidence 457788888889999999999999887765
No 29
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=52.72 E-value=6.3 Score=27.82 Aligned_cols=20 Identities=25% Similarity=0.486 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHhhccc
Q 034029 28 LVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 28 ~MlgLIAvALliLaCSy~K~ 47 (105)
+.++||+++||+|+..++.+
T Consensus 4 l~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 4 LFAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHH
Confidence 44556666666666666654
No 30
>PF11980 DUF3481: Domain of unknown function (DUF3481); InterPro: IPR022579 This domain of unknown function is located in the C terminus of the eukaryotic neuropilin receptor family of proteins. It is found in association with PF00754 from PFAM, PF00431 from PFAM and PF00629 from PFAM. There are two completely conserved residues (Y and E) that may be functionally important.
Probab=52.51 E-value=17 Score=25.48 Aligned_cols=20 Identities=30% Similarity=0.517 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034029 21 YLFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliL 40 (105)
|++.|=++.+.|++++|.++
T Consensus 18 yiiA~gga~llL~~v~l~vv 37 (87)
T PF11980_consen 18 YIIAMGGALLLLVAVCLGVV 37 (87)
T ss_pred HHHhhccHHHHHHHHHHHHH
Confidence 57777777888888885544
No 31
>PRK04989 psbM photosystem II reaction center protein M; Provisional
Probab=50.72 E-value=16 Score=21.68 Aligned_cols=13 Identities=31% Similarity=0.381 Sum_probs=7.8
Q ss_pred HHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLL 41 (105)
Q Consensus 29 MlgLIAvALliLa 41 (105)
.+|+||.+|.|+.
T Consensus 5 ~lgfiAt~Lfi~i 17 (35)
T PRK04989 5 DLGFVASLLFVLV 17 (35)
T ss_pred HHHHHHHHHHHHH
Confidence 3566666666653
No 32
>PF13295 DUF4077: Domain of unknown function (DUF4077)
Probab=49.01 E-value=6.8 Score=29.81 Aligned_cols=28 Identities=39% Similarity=0.640 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034029 20 PYLFTSLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 20 PYLFgGLA~MlgLIAvALliLaCSy~K~ 47 (105)
-||---|.++||-+|+.|....||||..
T Consensus 113 iylserlvvilggvavvltfilcsywpe 140 (175)
T PF13295_consen 113 IYLSERLVVILGGVAVVLTFILCSYWPE 140 (175)
T ss_pred HHHHhHHHHhcccchheeehhhhhcChH
Confidence 3556677888899999999999999974
No 33
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=48.82 E-value=22 Score=21.15 Aligned_cols=15 Identities=27% Similarity=0.616 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHHHHH
Q 034029 24 TSLALVLVLIAVALV 38 (105)
Q Consensus 24 gGLA~MlgLIAvALl 38 (105)
.|+.+++.+|.+|++
T Consensus 20 ~gl~il~~~vl~ai~ 34 (56)
T PF12911_consen 20 IGLIILLILVLLAIF 34 (56)
T ss_pred HHHHHHHHHHHHHHH
Confidence 344444444444433
No 34
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=48.71 E-value=23 Score=27.10 Aligned_cols=28 Identities=21% Similarity=0.517 Sum_probs=19.4
Q ss_pred HHHHHH---HHHHHHHHHHHHHHHhhcccCC
Q 034029 22 LFTSLA---LVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 22 LFgGLA---~MlgLIAvALliLaCSy~K~~s 49 (105)
|.+++. +++.||.+.-||-.||||+.+.
T Consensus 121 lilaisvtvv~~iliii~CLiei~shr~a~~ 151 (154)
T PF14914_consen 121 LILAISVTVVVMILIIIFCLIEICSHRRASE 151 (154)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 455544 4456777888888999988554
No 35
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=48.29 E-value=29 Score=25.27 Aligned_cols=32 Identities=19% Similarity=0.143 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccCCCCCC
Q 034029 22 LFTSLALVLVLIAVALVLLLCSYHKRYSNSSS 53 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLaCSy~K~~s~s~~ 53 (105)
.||-+|.++|+|++.+..+-=-++|...+...
T Consensus 70 i~gv~aGvIg~Illi~y~irR~~Kk~~~~~~p 101 (122)
T PF01102_consen 70 IFGVMAGVIGIILLISYCIRRLRKKSSSDVQP 101 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHS---------
T ss_pred hHHHHHHHHHHHHHHHHHHHHHhccCCCCCCC
Confidence 47777777788887777777778888765554
No 36
>PTZ00370 STEVOR; Provisional
Probab=48.13 E-value=21 Score=29.85 Aligned_cols=23 Identities=43% Similarity=0.865 Sum_probs=16.0
Q ss_pred HHH-HHHHHHHHHHHHH-HHhhccc
Q 034029 25 SLA-LVLVLIAVALVLL-LCSYHKR 47 (105)
Q Consensus 25 GLA-~MlgLIAvALliL-aCSy~K~ 47 (105)
|+| +.|-++||.|+|| .|=|||+
T Consensus 258 giaalvllil~vvliilYiwlyrrR 282 (296)
T PTZ00370 258 GIAALVLLILAVVLIILYIWLYRRR 282 (296)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444 4556689999998 7777664
No 37
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=48.05 E-value=22 Score=29.79 Aligned_cols=23 Identities=39% Similarity=0.857 Sum_probs=16.0
Q ss_pred HHH-HHHHHHHHHHHHH-HHhhccc
Q 034029 25 SLA-LVLVLIAVALVLL-LCSYHKR 47 (105)
Q Consensus 25 GLA-~MlgLIAvALliL-aCSy~K~ 47 (105)
|+| +.|-++||.|+|| .|=|||+
T Consensus 262 giaalvllil~vvliiLYiWlyrrR 286 (295)
T TIGR01478 262 GIAALVLIILTVVLIILYIWLYRRR 286 (295)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 444 4556689999998 7777664
No 38
>PF15471 TMEM171: Transmembrane protein family 171
Probab=47.47 E-value=40 Score=28.42 Aligned_cols=69 Identities=14% Similarity=0.228 Sum_probs=34.4
Q ss_pred HHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCCCCCCCCCC-CCCCCCeEEEEecCCCCCccceeccCCCC
Q 034029 27 ALVLVLIAVALVLLLCSYHKRYSNSSSGNGRDQENQPAVLPK-VLDPEPKVVVIMAGDDKPRYLATQATISS 97 (105)
Q Consensus 27 A~MlgLIAvALliLaCSy~K~~s~s~~~~~~d~ek~~~~~~~-~~~~e~kivVIMAGd~~PTfLAkP~~s~s 97 (105)
+..+.|+.+-..+.|+-.+|..-+.+.+..+.||......+. ++.-.+ .||+-=---|-|++.+.++..
T Consensus 166 GPlIVl~GLCFFVVAHvKKr~nln~~qd~se~Ee~~~qs~Ep~qVTVGD--aViiFPPPPPPYF~ess~~a~ 235 (319)
T PF15471_consen 166 GPLIVLVGLCFFVVAHVKKRNNLNGSQDASESEEGQTQSTEPVQVTVGD--AVIIFPPPPPPYFPESSASAV 235 (319)
T ss_pred hhHHHHHhhhhhheeeeeeccCCCcccCccccccCCCCCCCCEEEEecC--EEEEcCCccCCCCCCCCcccc
Confidence 344556666777888888776554443222223222211111 111111 144444557888887765543
No 39
>PF05399 EVI2A: Ectropic viral integration site 2A protein (EVI2A); InterPro: IPR008608 This family contains several mammalian ectropic viral integration site 2A (EVI2A) proteins. The function of this protein is unknown although it is thought to be a membrane protein and may function as an oncogene in retrovirus induced myeloid tumours [, ].; GO: 0016021 integral to membrane
Probab=46.60 E-value=20 Score=29.01 Aligned_cols=18 Identities=33% Similarity=0.938 Sum_probs=14.4
Q ss_pred HHHHHHHHHHHHHHHHHh
Q 034029 26 LALVLVLIAVALVLLLCS 43 (105)
Q Consensus 26 LA~MlgLIAvALliLaCS 43 (105)
.|..+.||-+|.|+|.|.
T Consensus 128 ~amLIClIIIAVLfLICT 145 (227)
T PF05399_consen 128 MAMLICLIIIAVLFLICT 145 (227)
T ss_pred hhHHHHHHHHHHHHHHHH
Confidence 456677899999999995
No 40
>PF06667 PspB: Phage shock protein B; InterPro: IPR009554 This family consists of several bacterial phage shock protein B (PspB) sequences. The phage shock protein (psp) operon is induced in response to heat, ethanol, osmotic shock and infection by filamentous bacteriophages []. Expression of the operon requires the alternative sigma factor sigma54 and the transcriptional activator PspF. In addition, PspA plays a negative regulatory role, and the integral-membrane proteins PspB and PspC play a positive one [].; GO: 0006355 regulation of transcription, DNA-dependent, 0009271 phage shock
Probab=45.43 E-value=32 Score=23.18 Aligned_cols=28 Identities=25% Similarity=0.561 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K~~ 48 (105)
+.|...-+++++|-||.+-|..-|++..
T Consensus 3 ~~fl~~plivf~ifVap~WL~lHY~sk~ 30 (75)
T PF06667_consen 3 FEFLFVPLIVFMIFVAPIWLILHYRSKW 30 (75)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4566666677777777777777776543
No 41
>PRK05419 putative sulfite oxidase subunit YedZ; Reviewed
Probab=45.24 E-value=31 Score=26.61 Aligned_cols=30 Identities=27% Similarity=0.405 Sum_probs=25.9
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034029 18 PIPYLFTSLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 18 PvPYLFgGLA~MlgLIAvALliLaCSy~K~ 47 (105)
..||+..|+.+++.|+.+|+.-.-..++|.
T Consensus 113 ~~~~i~~G~ia~~lLl~LaiTS~~~~~rrL 142 (205)
T PRK05419 113 KRPYITVGMAAFLILLPLALTSTRASQRRL 142 (205)
T ss_pred hchHHHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence 468999999999999999999888887754
No 42
>PF06596 PsbX: Photosystem II reaction centre X protein (PsbX); InterPro: IPR009518 Oxygenic photosynthesis uses two multi-subunit photosystems (I and II) located in the cell membranes of cyanobacteria and in the thylakoid membranes of chloroplasts in plants and algae. Photosystem II (PSII) has a P680 reaction centre containing chlorophyll 'a' that uses light energy to carry out the oxidation (splitting) of water molecules, and to produce ATP via a proton pump. Photosystem I (PSI) has a P700 reaction centre containing chlorophyll that takes the electron and associated hydrogen donated from PSII to reduce NADP+ to NADPH. Both ATP and NADPH are subsequently used in the light-independent reactions to convert carbon dioxide to glucose using the hydrogen atom extracted from water by PSII, releasing oxygen as a by-product. PSII is a multisubunit protein-pigment complex containing polypeptides both intrinsic and extrinsic to the photosynthetic membrane [, ]. Within the core of the complex, the chlorophyll and beta-carotene pigments are mainly bound to the antenna proteins CP43 (PsbC) and CP47 (PsbB), which pass the excitation energy on to the reaction centre proteins D1 (Qb, PsbA) and D2 (Qa, PsbD) that bind all the redox-active cofactors involved in the energy conversion process. The PSII oxygen-evolving complex (OEC) oxidises water to provide protons for use by PSI, and consists of OEE1 (PsbO), OEE2 (PsbP) and OEE3 (PsbQ). The remaining subunits in PSII are of low molecular weight (less than 10 kDa), and are involved in PSII assembly, stabilisation, dimerisation, and photo-protection []. The low molecular weight transmembrane protein PsbX found in PSII is associated with the oxygen-evolving complex. Its expression is light-regulated. PsbX appears to be involved in the regulation of the amount of PSII [], and may be involved in the binding or turnover of quinone molecules at the Qb (PsbA) site [].; GO: 0015979 photosynthesis, 0009523 photosystem II, 0016020 membrane; PDB: 3ARC_x 3A0H_X 3A0B_X 3PRR_X 1S5L_x 4FBY_j 3PRQ_X 3KZI_X 3BZ2_X 3BZ1_X.
Probab=44.27 E-value=39 Score=20.46 Aligned_cols=20 Identities=30% Similarity=0.453 Sum_probs=14.7
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 034029 22 LFTSLALVLVLIAVALVLLL 41 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLa 41 (105)
|+.|-++.++.|++||+...
T Consensus 12 l~aG~~iVv~~i~~ali~VS 31 (39)
T PF06596_consen 12 LVAGAVIVVIPIAGALIFVS 31 (39)
T ss_dssp HHHHH-HHHHHHHHHHHHHH
T ss_pred HHhhhhhhhhhhhhheEEEe
Confidence 66777788888998888653
No 43
>PHA02909 hypothetical protein; Provisional
Probab=43.71 E-value=28 Score=23.23 Aligned_cols=9 Identities=44% Similarity=1.003 Sum_probs=6.7
Q ss_pred HHHHHHhhc
Q 034029 37 LVLLLCSYH 45 (105)
Q Consensus 37 LliLaCSy~ 45 (105)
..||||||-
T Consensus 49 ftilacsyv 57 (72)
T PHA02909 49 FTILACSYV 57 (72)
T ss_pred HHHHHHHHH
Confidence 357899984
No 44
>PHA03283 envelope glycoprotein E; Provisional
Probab=43.35 E-value=37 Score=30.61 Aligned_cols=26 Identities=23% Similarity=0.350 Sum_probs=22.4
Q ss_pred hHH--HHHHHHHHHHHHHHHHHHHHHhh
Q 034029 19 IPY--LFTSLALVLVLIAVALVLLLCSY 44 (105)
Q Consensus 19 vPY--LFgGLA~MlgLIAvALliLaCSy 44 (105)
-+| +++|+.+..||+.++|.+.+|-+
T Consensus 397 ~~~l~~~~~~~~~~~~~~~~l~vw~c~~ 424 (542)
T PHA03283 397 RHYLAFLLAIICTCAALLVALVVWGCIL 424 (542)
T ss_pred cccchhHHHHHHHHHHHHHHHhhhheee
Confidence 556 58888899999999999999987
No 45
>PRK05696 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=43.06 E-value=92 Score=22.94 Aligned_cols=20 Identities=15% Similarity=0.248 Sum_probs=15.7
Q ss_pred CCCCeEEEEecCCCCCccce
Q 034029 71 DPEPKVVVIMAGDDKPRYLA 90 (105)
Q Consensus 71 ~~e~kivVIMAGd~~PTfLA 90 (105)
+.+|.|+|=++|+.+-.||-
T Consensus 71 ~l~~~fvvNl~~~~~~ryLk 90 (170)
T PRK05696 71 PMPRPFVFNVPGNGRDRLVQ 90 (170)
T ss_pred ecCCCEEEEecCCCCceEEE
Confidence 44567999999888888885
No 46
>PF06697 DUF1191: Protein of unknown function (DUF1191); InterPro: IPR010605 This family contains hypothetical plant proteins of unknown function.
Probab=42.76 E-value=6 Score=32.60 Aligned_cols=59 Identities=12% Similarity=0.184 Sum_probs=30.3
Q ss_pred CCcccccCchHHHHHH-HHHHHHHHHHHHHHHHHhhcccCCCCCCCCCCCCCCCCCCCCCCCCCCCeEEEEecCCCC
Q 034029 10 APIDLWHSPIPYLFTS-LALVLVLIAVALVLLLCSYHKRYSNSSSGNGRDQENQPAVLPKVLDPEPKVVVIMAGDDK 85 (105)
Q Consensus 10 ~~~~~W~SPvPYLFgG-LA~MlgLIAvALliLaCSy~K~~s~s~~~~~~d~ek~~~~~~~~~~~e~kivVIMAGd~~ 85 (105)
...|.|. +.+| .+-.++|+-++++++.+.++|...-- +++|...+.+|..=+.|.|+.+
T Consensus 208 ~~~~~W~-----iv~g~~~G~~~L~ll~~lv~~~vr~krk~k~------------~eMEr~A~~gE~L~~~~VG~sr 267 (278)
T PF06697_consen 208 KRSWWWK-----IVVGVVGGVVLLGLLSLLVAMLVRYKRKKKI------------EEMERRAEEGEALQMSWVGGSR 267 (278)
T ss_pred CcceeEE-----EEEEehHHHHHHHHHHHHHHhhhhhhHHHHH------------HHHHHhhccCceeeeEEEcccc
Confidence 4556676 3333 22222345555666777776643210 1222333445555588888876
No 47
>PF06305 DUF1049: Protein of unknown function (DUF1049); InterPro: IPR010445 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=42.71 E-value=47 Score=20.34 Aligned_cols=30 Identities=23% Similarity=0.276 Sum_probs=16.8
Q ss_pred CcccccCchHH-HHHHHHHHHHHHHHHHHHH
Q 034029 11 PIDLWHSPIPY-LFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 11 ~~~~W~SPvPY-LFgGLA~MlgLIAvALliL 40 (105)
.+..|+.+.|. +...+++.+|.|...|+.+
T Consensus 10 ~~~~~~~~~pl~l~il~~f~~G~llg~l~~~ 40 (68)
T PF06305_consen 10 NFLFGQFPLPLGLLILIAFLLGALLGWLLSL 40 (68)
T ss_pred EEEeeeccchHHHHHHHHHHHHHHHHHHHHH
Confidence 34567777775 4455555566655554443
No 48
>PF09049 SNN_transmemb: Stannin transmembrane; InterPro: IPR015135 This region consists of a single highly hydrophobic transmembrane helix that transverses the lipid bilayer at a 20 degree angle with respect to the membrane normal. It contains a conserved cysteine residue (Cys32) that, together with Cys34 found in the stannin unstructured linker domain, constitutes the putative trimethyltin-binding site that resides at the end of the transmembrane domain close to the lipid/solvent interface []. ; PDB: 1ZZA_A.
Probab=42.27 E-value=70 Score=18.66 Aligned_cols=27 Identities=41% Similarity=0.735 Sum_probs=14.5
Q ss_pred cCchHHHHHHHHHHHHHHHHH-HHHHHHhhc
Q 034029 16 HSPIPYLFTSLALVLVLIAVA-LVLLLCSYH 45 (105)
Q Consensus 16 ~SPvPYLFgGLA~MlgLIAvA-LliLaCSy~ 45 (105)
|||+- |-.-...-|||+| |-+|.|-.|
T Consensus 6 hsptt---gvvti~viliavaalg~licgcw 33 (33)
T PF09049_consen 6 HSPTT---GVVTIIVILIAVAALGALICGCW 33 (33)
T ss_dssp TTTHH---HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CCCCc---cEEEehhHHHHHHHHhhhheecC
Confidence 56653 3334445567765 445666544
No 49
>COG4961 TadG Flp pilus assembly protein TadG [Intracellular trafficking and secretion]
Probab=42.26 E-value=27 Score=25.97 Aligned_cols=20 Identities=30% Similarity=0.441 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHHHHHHHh
Q 034029 24 TSLALVLVLIAVALVLLLCS 43 (105)
Q Consensus 24 gGLA~MlgLIAvALliLaCS 43 (105)
|..|++++||+.-|++|.+-
T Consensus 21 Ga~AVeFAlvap~ll~l~~g 40 (185)
T COG4961 21 GAAAVEFALVAPPLLLLVFG 40 (185)
T ss_pred chHHHHHHHHHHHHHHHHHH
Confidence 56789999999999888764
No 50
>PF14241 DUF4341: Domain of unknown function (DUF4341)
Probab=41.16 E-value=44 Score=21.22 Aligned_cols=22 Identities=36% Similarity=0.490 Sum_probs=14.6
Q ss_pred CchHHHHHHHHHHHHHHHHHHHHH
Q 034029 17 SPIPYLFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 17 SPvPYLFgGLA~MlgLIAvALliL 40 (105)
||.+.++||+ ++|+-++.|+.+
T Consensus 1 Tp~~~l~GG~--lIGla~~~ll~~ 22 (62)
T PF14241_consen 1 TPWSALIGGL--LIGLAASLLLLL 22 (62)
T ss_pred CccHHHHHHH--HHHHHHHHHHHH
Confidence 5788888885 556655555544
No 51
>COG3715 ManY Phosphotransferase system, mannose/fructose/N-acetylgalactosamine-specific component IIC [Carbohydrate transport and metabolism]
Probab=40.33 E-value=87 Score=25.74 Aligned_cols=13 Identities=31% Similarity=0.741 Sum_probs=10.3
Q ss_pred CchHHHHHHHHHH
Q 034029 17 SPIPYLFTSLALV 29 (105)
Q Consensus 17 SPvPYLFgGLA~M 29 (105)
.=.||+|.|+.+.
T Consensus 204 ~~~pff~lGFv~a 216 (265)
T COG3715 204 ELIPFFFLGFVLA 216 (265)
T ss_pred chhHHHHHHHHHH
Confidence 3479999998765
No 52
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=40.10 E-value=30 Score=26.51 Aligned_cols=29 Identities=14% Similarity=0.322 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccCCCCC
Q 034029 23 FTSLALVLVLIAVALVLLLCSYHKRYSNSS 52 (105)
Q Consensus 23 FgGLA~MlgLIAvALliLaCSy~K~~s~s~ 52 (105)
.+|..++||+||. ..|..|-+.|++++++
T Consensus 67 VfgiVfimgvva~-i~icvCmc~kn~rgsR 95 (155)
T PF10873_consen 67 VFGIVFIMGVVAG-IAICVCMCMKNSRGSR 95 (155)
T ss_pred ehhhHHHHHHHHH-HHHHHhhhhhcCCCcc
Confidence 4677788888774 4566777777665444
No 53
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=39.95 E-value=45 Score=23.57 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcccC
Q 034029 23 FTSLALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 23 FgGLA~MlgLIAvALliLaCSy~K~~ 48 (105)
..++-++|-||.++.-|++|-..|+.
T Consensus 3 Ll~il~llLll~l~asl~~wr~~~rq 28 (107)
T PF15330_consen 3 LLGILALLLLLSLAASLLAWRMKQRQ 28 (107)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 44555566677788888888776654
No 54
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=39.87 E-value=30 Score=23.96 Aligned_cols=6 Identities=0% Similarity=-0.114 Sum_probs=2.4
Q ss_pred HHhhcc
Q 034029 41 LCSYHK 46 (105)
Q Consensus 41 aCSy~K 46 (105)
..+-+.
T Consensus 22 evaa~~ 27 (95)
T PF07172_consen 22 EVAARE 27 (95)
T ss_pred hhhhHH
Confidence 344333
No 55
>PF01998 DUF131: Protein of unknown function DUF131; InterPro: IPR002849 This archaebacterial protein family has no known function. The proteins are predicted to contain two transmembrane helices.
Probab=39.62 E-value=17 Score=23.85 Aligned_cols=25 Identities=36% Similarity=0.758 Sum_probs=14.5
Q ss_pred CchHHHHHH---HHHHHHHHHHHHHHHH
Q 034029 17 SPIPYLFTS---LALVLVLIAVALVLLL 41 (105)
Q Consensus 17 SPvPYLFgG---LA~MlgLIAvALliLa 41 (105)
=|+|-.||. ++..+.++|+.|++++
T Consensus 32 GPIPIvFGs~~~~~~~~~ilaiil~i~~ 59 (64)
T PF01998_consen 32 GPIPIVFGSSPRIAKIAMILAIILMILA 59 (64)
T ss_pred ecccEEEcCCHHHHHHHHHHHHHHHHHH
Confidence 378888874 4555555555555543
No 56
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=39.54 E-value=9.8 Score=28.02 Aligned_cols=19 Identities=42% Similarity=0.642 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhcccC
Q 034029 30 LVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 30 lgLIAvALliLaCSy~K~~ 48 (105)
|.+|-..|||+-|-|.|.+
T Consensus 32 L~VILgiLLliGCWYckRR 50 (118)
T PF14991_consen 32 LIVILGILLLIGCWYCKRR 50 (118)
T ss_dssp -------------------
T ss_pred HHHHHHHHHHHhheeeeec
Confidence 3344445666777765543
No 57
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=38.98 E-value=10 Score=32.61 Aligned_cols=42 Identities=14% Similarity=0.216 Sum_probs=0.0
Q ss_pred CCCcccccCchHHHHHHHHHHHHHHHHHHHHHHHhhcccCCC
Q 034029 9 TAPIDLWHSPIPYLFTSLALVLVLIAVALVLLLCSYHKRYSN 50 (105)
Q Consensus 9 ~~~~~~W~SPvPYLFgGLA~MlgLIAvALliLaCSy~K~~s~ 50 (105)
..+...|..-+-.+.|+.++++.++.++++++.|.+||....
T Consensus 345 ~~~~~~~~~~l~vVlgvavlivVv~viv~vc~~~rrrR~~~~ 386 (439)
T PF02480_consen 345 SPRTSRGAALLGVVLGVAVLIVVVGVIVWVCLRCRRRRRQRD 386 (439)
T ss_dssp ------------------------------------------
T ss_pred CCCCCcccchHHHHHHHHHHHHHHHHHhheeeeehhcccccc
Confidence 456677888888888877777777777888888877765443
No 58
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=38.60 E-value=46 Score=25.96 Aligned_cols=21 Identities=33% Similarity=0.781 Sum_probs=14.1
Q ss_pred HHHHHHHHHHHHHHHHhhccc
Q 034029 27 ALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 27 A~MlgLIAvALliLaCSy~K~ 47 (105)
+..+-+|-+-+||..||+||.
T Consensus 37 aIvVliiiiivli~lcssRKk 57 (189)
T PF05568_consen 37 AIVVLIIIIIVLIYLCSSRKK 57 (189)
T ss_pred HHHHHHHHHHHHHHHHhhhhH
Confidence 333444566677888999886
No 59
>PF15339 Afaf: Acrosome formation-associated factor
Probab=38.52 E-value=44 Score=26.50 Aligned_cols=23 Identities=17% Similarity=0.349 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHh
Q 034029 21 YLFTSLALVLVLIAVALVLLLCS 43 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCS 43 (105)
=|..|+.+|-.||-+.||++.|.
T Consensus 131 kLmLGIsLmTl~lfv~Ll~~c~a 153 (200)
T PF15339_consen 131 KLMLGISLMTLFLFVILLAFCSA 153 (200)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 38899999999998888888764
No 60
>PF05255 UPF0220: Uncharacterised protein family (UPF0220); InterPro: IPR007919 This family of proteins is functionally uncharacterised.
Probab=38.44 E-value=41 Score=25.44 Aligned_cols=26 Identities=27% Similarity=0.387 Sum_probs=22.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K 46 (105)
.||.|+++|.|=++-|+-||.=-|-.
T Consensus 102 ~LFigf~l~fggl~~s~~vli~~yv~ 127 (166)
T PF05255_consen 102 WLFIGFALSFGGLAGSVWVLILKYVV 127 (166)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccccc
Confidence 69999999999999999999865544
No 61
>PRK09458 pspB phage shock protein B; Provisional
Probab=37.90 E-value=35 Score=23.25 Aligned_cols=29 Identities=24% Similarity=0.438 Sum_probs=23.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
++|.+.-+++++|-||.+=|..-|+....
T Consensus 3 ~~fl~~PliiF~ifVaPiWL~LHY~sk~~ 31 (75)
T PRK09458 3 ALFLAIPLTIFVLFVAPIWLWLHYRSKRQ 31 (75)
T ss_pred chHHHHhHHHHHHHHHHHHHHHhhccccc
Confidence 67888888999999999999888866443
No 62
>PF03381 CDC50: LEM3 (ligand-effect modulator 3) family / CDC50 family; InterPro: IPR005045 Members of this family have no known function. They have predicted transmembrane helices.; GO: 0016020 membrane
Probab=37.89 E-value=75 Score=25.45 Aligned_cols=35 Identities=3% Similarity=0.067 Sum_probs=25.2
Q ss_pred ccccCchHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034029 13 DLWHSPIPYLFTSLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 13 ~~W~SPvPYLFgGLA~MlgLIAvALliLaCSy~K~ 47 (105)
...+--..++|..+++...++++.|+++-+.+-|.
T Consensus 239 Ggkn~~Lgi~ylvvg~i~~v~~i~~~~~~~~~~r~ 273 (278)
T PF03381_consen 239 GGKNYFLGIAYLVVGGICLVLAIIFLIIHYFKPRK 273 (278)
T ss_pred CccccHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 33455567788888888888888888887765443
No 63
>PRK07021 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=37.03 E-value=1.5e+02 Score=21.71 Aligned_cols=19 Identities=32% Similarity=0.323 Sum_probs=13.4
Q ss_pred CCCCeEEEEe-cCCCCCccce
Q 034029 71 DPEPKVVVIM-AGDDKPRYLA 90 (105)
Q Consensus 71 ~~e~kivVIM-AGd~~PTfLA 90 (105)
+.+ .|+|=+ .+++..+||-
T Consensus 63 ~L~-~f~VNL~~~~~~~rylk 82 (162)
T PRK07021 63 PLE-TFTVNLQPDDDADRVLY 82 (162)
T ss_pred ecC-CEEEEcCCCCCCceEEE
Confidence 444 488888 5666788875
No 64
>PTZ00260 dolichyl-phosphate beta-glucosyltransferase; Provisional
Probab=36.23 E-value=1.7e+02 Score=23.56 Aligned_cols=15 Identities=7% Similarity=0.388 Sum_probs=10.8
Q ss_pred CCCCeEEEEecCCCC
Q 034029 71 DPEPKVVVIMAGDDK 85 (105)
Q Consensus 71 ~~e~kivVIMAGd~~ 85 (105)
+.+++|-|||+--+.
T Consensus 67 ~~~~~isVVIP~yNe 81 (333)
T PTZ00260 67 DSDVDLSIVIPAYNE 81 (333)
T ss_pred CCCeEEEEEEeeCCC
Confidence 567788899885444
No 65
>KOG3626 consensus Organic anion transporter [Secondary metabolites biosynthesis, transport and catabolism]
Probab=35.27 E-value=98 Score=28.80 Aligned_cols=27 Identities=22% Similarity=0.424 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034029 20 PYLFTSLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 20 PYLFgGLA~MlgLIAvALliLaCSy~K 46 (105)
=|.|.||.+++.+|++.++|+.---||
T Consensus 673 r~~y~gl~~~~~~~~~i~~i~~~~v~r 699 (735)
T KOG3626|consen 673 RYRYLGLHIILKVIALILLIIDLYVWR 699 (735)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 478999999999999988888665555
No 66
>PHA00736 hypothetical protein
Probab=34.65 E-value=36 Score=23.22 Aligned_cols=14 Identities=36% Similarity=0.525 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHH
Q 034029 22 LFTSLALVLVLIAV 35 (105)
Q Consensus 22 LFgGLA~MlgLIAv 35 (105)
||-|+++++||||=
T Consensus 57 lfwgi~vifgliag 70 (79)
T PHA00736 57 LFWGITVIFGLIAG 70 (79)
T ss_pred HHHHHHHHHHHHHH
Confidence 78899999999974
No 67
>PF13807 GNVR: G-rich domain on putative tyrosine kinase
Probab=34.63 E-value=80 Score=20.33 Aligned_cols=19 Identities=42% Similarity=0.413 Sum_probs=14.3
Q ss_pred cCchHHHHHHHHHHHHHHH
Q 034029 16 HSPIPYLFTSLALVLVLIA 34 (105)
Q Consensus 16 ~SPvPYLFgGLA~MlgLIA 34 (105)
.+|-.-++..+|+++||+.
T Consensus 54 ~~P~~~lil~l~~~~Gl~l 72 (82)
T PF13807_consen 54 VSPKRALILALGLFLGLIL 72 (82)
T ss_pred CCCcHHHHHHHHHHHHHHH
Confidence 3566778888888888854
No 68
>PF12606 RELT: Tumour necrosis factor receptor superfamily member 19; InterPro: IPR022248 The members of tumor necrosis factor receptor (TNFR) superfamily have been designated as the "guardians of the immune system" due to their roles in immune cell proliferation, differentiation, activation, and death (apoptosis). RELT (receptor expressed in lymphoid tissues) is a member of the TNFR superfamily. The messenger RNA of RELT is especially abundant in hematologic tissues such as spleen, lymph node, and peripheral blood leukocytes as well as in leukemias and lymphomas. RELT is able to activate the NF-kappaB pathway and selectively binds tumor necrosis factor receptor-associated factor 1 []. RELT like proteins 1 and 2 (RELL1 and RELL2) are two RELT homologues that bind to RELT. The expression of RELL1 at the mRNA level is ubiquitous, whereas expression of RELL2 mRNA is more restricted to particular tissues [].
Probab=34.55 E-value=1.2e+02 Score=19.02 Aligned_cols=21 Identities=24% Similarity=0.371 Sum_probs=12.8
Q ss_pred HHHHHHHHHHhhcccCCCCCC
Q 034029 33 IAVALVLLLCSYHKRYSNSSS 53 (105)
Q Consensus 33 IAvALliLaCSy~K~~s~s~~ 53 (105)
|.+-|.++.|.--|..+...+
T Consensus 12 v~~lLg~~I~~~~K~ygYkht 32 (50)
T PF12606_consen 12 VMGLLGLSICTTLKAYGYKHT 32 (50)
T ss_pred HHHHHHHHHHHHhhccccccc
Confidence 344456677877776665444
No 69
>COG4594 FecB ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]
Probab=34.28 E-value=83 Score=26.54 Aligned_cols=20 Identities=30% Similarity=0.567 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHHHHhhc
Q 034029 26 LALVLVLIAVALVLLLCSYH 45 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~ 45 (105)
.+.|++|+..-||+-+||-.
T Consensus 6 ~~~i~~lll~lllva~C~~s 25 (310)
T COG4594 6 TAIILTLLLLLLLVAACSSS 25 (310)
T ss_pred hHHHHHHHHHHHHHHHhcCc
Confidence 46788999888999999865
No 70
>PRK13726 conjugal transfer pilus assembly protein TraE; Provisional
Probab=33.98 E-value=83 Score=24.13 Aligned_cols=34 Identities=18% Similarity=0.122 Sum_probs=25.8
Q ss_pred cCchHHH---HHHHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 16 HSPIPYL---FTSLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 16 ~SPvPYL---FgGLA~MlgLIAvALliLaCSy~K~~s 49 (105)
+|-.=++ |.+|+..+.|+.++.++|++.-|+...
T Consensus 7 ~~~~~~~~~~~~~l~~l~~~~~~~~v~l~~~~~~~~~ 43 (188)
T PRK13726 7 LSTSRVMAIAFIFLSVLIVLSLSVNVIQGVNNYRLQN 43 (188)
T ss_pred ccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3344455 888888888888999999999887543
No 71
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=33.54 E-value=50 Score=22.87 Aligned_cols=20 Identities=25% Similarity=0.084 Sum_probs=14.8
Q ss_pred HHHHHHHHHHHHHHhhcccC
Q 034029 29 VLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 29 MlgLIAvALliLaCSy~K~~ 48 (105)
.+|++++.++|++.-+||..
T Consensus 7 v~~~~~v~~~i~~y~~~k~~ 26 (87)
T PF10883_consen 7 VGGVGAVVALILAYLWWKVK 26 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 44677788888888888863
No 72
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=33.46 E-value=40 Score=22.01 Aligned_cols=12 Identities=25% Similarity=0.437 Sum_probs=6.0
Q ss_pred HHHHHHHHHHHh
Q 034029 32 LIAVALVLLLCS 43 (105)
Q Consensus 32 LIAvALliLaCS 43 (105)
++|+|+++|++.
T Consensus 5 I~Aiaf~vLvi~ 16 (90)
T PF06103_consen 5 IAAIAFAVLVIF 16 (90)
T ss_pred HHHHHHHHHHHH
Confidence 445555555443
No 73
>PF15240 Pro-rich: Proline-rich
Probab=33.42 E-value=29 Score=27.01 Aligned_cols=13 Identities=54% Similarity=0.754 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLL 41 (105)
Q Consensus 29 MlgLIAvALliLa 41 (105)
.|.|..||||+|.
T Consensus 2 LlVLLSvALLALS 14 (179)
T PF15240_consen 2 LLVLLSVALLALS 14 (179)
T ss_pred hhHHHHHHHHHhh
Confidence 3567889999885
No 74
>cd02435 CCC1 CCC1. CCC1: This domain is present in the CCC1, an iron and manganese transporter of Saccharomyces cerevisiae. CCC1 is a transmembrane protein that is located in the vacuole and transfers the iron and manganese ions from the cytosol to the vacuole. This domain may be unique to certain fungi and plants.
Probab=32.59 E-value=76 Score=25.07 Aligned_cols=30 Identities=27% Similarity=0.399 Sum_probs=17.2
Q ss_pred hHHHHH-----HHHHHHHHHHHHHHHHHHhhcccC
Q 034029 19 IPYLFT-----SLALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 19 vPYLFg-----GLA~MlgLIAvALliLaCSy~K~~ 48 (105)
+||+|. ++...+++-.++|+++-+.+-+.+
T Consensus 173 lPy~~~~~~~~a~~~si~l~~~aL~ilG~~~s~~s 207 (241)
T cd02435 173 LPYFFVSTVGEALLLSVIVTLVALFVFGYVKTWFT 207 (241)
T ss_pred HHHHHccchhHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 478773 455555555666666655554443
No 75
>PF12048 DUF3530: Protein of unknown function (DUF3530); InterPro: IPR022529 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are typically between 272 to 336 amino acids in length. These proteins are distantly related to alpa/beta hydrolases so they may act as enzymes.
Probab=32.53 E-value=66 Score=25.91 Aligned_cols=16 Identities=31% Similarity=0.630 Sum_probs=10.5
Q ss_pred CCeEEEEecCCCCCccce
Q 034029 73 EPKVVVIMAGDDKPRYLA 90 (105)
Q Consensus 73 e~kivVIMAGd~~PTfLA 90 (105)
.+.|+-|.+||++ |||
T Consensus 61 ~~e~~~L~~~~~~--fla 76 (310)
T PF12048_consen 61 ADEVQWLQAGEER--FLA 76 (310)
T ss_pred HhhcEEeecCCEE--EEE
Confidence 3677777777763 554
No 76
>PF01794 Ferric_reduct: Ferric reductase like transmembrane component; InterPro: IPR013130 This family includes a common region in the transmembrane proteins mammalian cytochrome b-245 heavy chain (gp91-phox), ferric reductase transmembrane component in yeast and respiratory burst oxidase from Arabidopsis thaliana. This may be a family of flavocytochromes capable of moving electrons across the plasma membrane [] that include a potential FAD binding domain. Mutations in the sequence of cytochrome b-245 heavy chain (gp91-phox) lead to the X-linked chronic granulomatous disease. The bacteriocidal ability of phagocytic cells is reduced and is characterised by the absence of a functional plasma membrane associated NADPH oxidase [].; GO: 0005506 iron ion binding, 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050660 flavin adenine dinucleotide binding, 0016021 integral to membrane
Probab=32.48 E-value=98 Score=20.14 Aligned_cols=27 Identities=22% Similarity=0.326 Sum_probs=19.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhh
Q 034029 18 PIPYLFTSLALVLVLIAVALVLLLCSY 44 (105)
Q Consensus 18 PvPYLFgGLA~MlgLIAvALliLaCSy 44 (105)
.-+|...|+.+++.++.+++.-+..-|
T Consensus 76 ~~~~~~~G~~a~~~l~~l~~tS~~~~R 102 (125)
T PF01794_consen 76 TGPYNLTGIIALLLLLILAVTSFPWIR 102 (125)
T ss_pred HhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 346667788777777777776666666
No 77
>PF10826 DUF2551: Protein of unknown function (DUF2551) ; InterPro: IPR020501 This entry contains proteins with no known function.
Probab=32.47 E-value=35 Score=23.68 Aligned_cols=18 Identities=28% Similarity=0.250 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034029 24 TSLALVLVLIAVALVLLL 41 (105)
Q Consensus 24 gGLA~MlgLIAvALliLa 41 (105)
=|.|+|+|+|+-=|=||-
T Consensus 44 ~~VasMVG~i~SrlGIL~ 61 (83)
T PF10826_consen 44 RGVASMVGLIHSRLGILS 61 (83)
T ss_pred HHHHHHHHHHHHhhhhee
Confidence 488999999999888884
No 78
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=32.41 E-value=90 Score=26.37 Aligned_cols=12 Identities=33% Similarity=0.730 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHh
Q 034029 32 LIAVALVLLLCS 43 (105)
Q Consensus 32 LIAvALliLaCS 43 (105)
|.|++|.++.|+
T Consensus 371 l~al~f~~~v~~ 382 (406)
T PF04906_consen 371 LAALLFSILVCV 382 (406)
T ss_pred HHHHHHHHHHHH
Confidence 344555555555
No 79
>PF11143 DUF2919: Protein of unknown function (DUF2919); InterPro: IPR021318 This bacterial family of proteins has no known function. Some members are annotated as YfeZ however this cannot be confirmed.
Probab=31.95 E-value=58 Score=24.17 Aligned_cols=23 Identities=35% Similarity=0.333 Sum_probs=17.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccC
Q 034029 25 SLALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 25 GLA~MlgLIAvALliLaCSy~K~~ 48 (105)
.+|..+|+.|+.++ +.+++|+..
T Consensus 57 ~lgL~~g~Pall~~-~l~~~R~~~ 79 (149)
T PF11143_consen 57 YLGLAAGLPALLLM-LLSGRRHRS 79 (149)
T ss_pred HHHHHHhHHHHHHH-HHHccCCCC
Confidence 46677899999888 888888743
No 80
>PF04976 DmsC: DMSO reductase anchor subunit (DmsC); InterPro: IPR007059 The terminal electron transfer enzyme dimethyl sulphoxide reductase of Escherichia coli is a heterotrimeric enzyme composed of a membrane extrinsic catalytic dimer (DmsAB) and a membrane intrinsic polytopic anchor subunit (DmsC) []. This family represents DmsC.; GO: 0019645 anaerobic electron transport chain, 0016021 integral to membrane
Probab=31.63 E-value=75 Score=25.13 Aligned_cols=28 Identities=32% Similarity=0.444 Sum_probs=19.9
Q ss_pred CCcccccCchHH-HHHHHHHHHHHHHHHH
Q 034029 10 APIDLWHSPIPY-LFTSLALVLVLIAVAL 37 (105)
Q Consensus 10 ~~~~~W~SPvPY-LFgGLA~MlgLIAvAL 37 (105)
..+..||+|..+ .|.|-++++|.+..++
T Consensus 140 ~~vp~W~~~~T~~~f~~tal~~G~~l~~~ 168 (276)
T PF04976_consen 140 TTVPAWNSPWTPISFLGTALLLGAALAAL 168 (276)
T ss_pred cchhcccCchHHHHHHHHHHHHHHHHHHH
Confidence 455679888655 7888888888865543
No 81
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=31.60 E-value=92 Score=20.25 Aligned_cols=27 Identities=19% Similarity=0.205 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcccC
Q 034029 22 LFTSLALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLaCSy~K~~ 48 (105)
.+-|.+--.|+|++.|+.+++-||-.+
T Consensus 5 ~~~~~a~a~~t~~~~l~fiavi~~ayr 31 (60)
T COG4736 5 MMRGFADAWGTIAFTLFFIAVIYFAYR 31 (60)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 466778888999999988888776554
No 82
>PF06800 Sugar_transport: Sugar transport protein; InterPro: IPR010651 This is a family of bacterial sugar transporters approximately 300 residues long. Members include glucose uptake proteins [], ribose transport proteins, and several putative and hypothetical membrane proteins probably involved in sugar transport across bacterial membranes.; GO: 0015144 carbohydrate transmembrane transporter activity, 0034219 carbohydrate transmembrane transport, 0016021 integral to membrane
Probab=31.46 E-value=61 Score=26.41 Aligned_cols=32 Identities=34% Similarity=0.620 Sum_probs=23.7
Q ss_pred cccccCchHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034029 12 IDLWHSPIPYLFTSLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 12 ~~~W~SPvPYLFgGLA~MlgLIAvALliLaCSy~K~ 47 (105)
+..|++..-+++|-+|+.+-++.+.| +|+++.
T Consensus 94 fgEW~~~~~~~~G~~Al~liiiGv~l----ts~~~~ 125 (269)
T PF06800_consen 94 FGEWTTTTQKIIGFLALVLIIIGVIL----TSYQDK 125 (269)
T ss_pred cCCCCCcchHHHHHHHHHHHHHHHHH----hccccc
Confidence 57799999999888888777776654 455443
No 83
>PF02411 MerT: MerT mercuric transport protein; InterPro: IPR003457 MerT is an mercuric transport integral membrane protein and is responsible for transport of the Hg2+ iron from periplasmic MerP (also part of the transport system) to mercuric reductase (MerA).; GO: 0015097 mercury ion transmembrane transporter activity, 0015694 mercury ion transport, 0016020 membrane
Probab=31.38 E-value=97 Score=22.20 Aligned_cols=18 Identities=28% Similarity=0.578 Sum_probs=14.9
Q ss_pred HHHHHHHHHHHhhcccCC
Q 034029 32 LIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 32 LIAvALliLaCSy~K~~s 49 (105)
+|+++|++|...+|+...
T Consensus 54 fi~~tl~~lg~a~~~~yr 71 (116)
T PF02411_consen 54 FIALTLLFLGYAFWRLYR 71 (116)
T ss_pred HHHHHHHHHHHHHHHHHc
Confidence 688899999999888654
No 84
>PF13903 Claudin_2: PMP-22/EMP/MP20/Claudin tight junction
Probab=31.11 E-value=83 Score=21.48 Aligned_cols=25 Identities=28% Similarity=0.385 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcc
Q 034029 22 LFTSLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLaCSy~K 46 (105)
.|..+++++.++|+-+.++.|-+++
T Consensus 73 ~~~~l~~~~~~~a~~~~~~~~~~~~ 97 (172)
T PF13903_consen 73 AFLILGLLLLLFAFVFALIGFCKRS 97 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccc
Confidence 4555566666666655555554443
No 85
>PLN00085 photosystem II reaction center protein M (PsbM); Provisional
Probab=30.54 E-value=43 Score=25.28 Aligned_cols=14 Identities=36% Similarity=0.567 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLLLC 42 (105)
Q Consensus 29 MlgLIAvALliLaC 42 (105)
.||+||.+|.||.=
T Consensus 82 iLgfIAtaLFIlIP 95 (149)
T PLN00085 82 ILGVIATALFIIIP 95 (149)
T ss_pred HHHHHHHHHHHHHH
Confidence 58889999888743
No 86
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=30.21 E-value=17 Score=29.95 Aligned_cols=13 Identities=23% Similarity=0.529 Sum_probs=0.0
Q ss_pred HHHHHHhhcccCC
Q 034029 37 LVLLLCSYHKRYS 49 (105)
Q Consensus 37 LliLaCSy~K~~s 49 (105)
+++..|.|||+.+
T Consensus 164 iIa~icyrrkR~G 176 (290)
T PF05454_consen 164 IIACICYRRKRKG 176 (290)
T ss_dssp -------------
T ss_pred HHHHHhhhhhhcc
Confidence 3344555555544
No 87
>PF11353 DUF3153: Protein of unknown function (DUF3153); InterPro: IPR021499 This family of proteins with unknown function appear to be restricted to Cyanobacteria. Some members are annotated as membrane proteins however this cannot be confirmed.
Probab=29.43 E-value=57 Score=24.75 Aligned_cols=7 Identities=14% Similarity=-0.159 Sum_probs=4.5
Q ss_pred CCccccc
Q 034029 10 APIDLWH 16 (105)
Q Consensus 10 ~~~~~W~ 16 (105)
..+|.|+
T Consensus 177 ~~~w~pn 183 (209)
T PF11353_consen 177 ASFWVPN 183 (209)
T ss_pred EEEEecc
Confidence 4557777
No 88
>PRK10081 entericidin B membrane lipoprotein; Provisional
Probab=28.91 E-value=71 Score=20.07 Aligned_cols=21 Identities=19% Similarity=0.512 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 034029 26 LALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K 46 (105)
+++|+.+++.++++-+|---+
T Consensus 6 i~~i~~~l~~~~~l~~CnTv~ 26 (48)
T PRK10081 6 IAAIFSVLVLSTVLTACNTTR 26 (48)
T ss_pred HHHHHHHHHHHHHHhhhhhhh
Confidence 567777788888888895544
No 89
>PF10717 ODV-E18: Occlusion-derived virus envelope protein ODV-E18; InterPro: IPR019655 Baculovirus occlusion-derived virus (ODV) derives its envelope from an intranuclear membrane source. Occlusion-derived viral envelope proteins that are detected in viral-induced intranuclear microvesicles, but not detected in the plasma membrane, cytoplasmic membranes, or the nuclear envelope. This entry represents ODV-E18 protein which is encoded by baculovirus late genes with transcription initiating from a TAAG motif. ODV-E18 exists as a dimer in the ODV envelope, which contains a hydrophobic domain that putatively acts as a target or retention signal for intranuclear microvesicles []. ; GO: 0019031 viral envelope
Probab=27.96 E-value=1e+02 Score=21.54 Aligned_cols=10 Identities=30% Similarity=0.800 Sum_probs=4.3
Q ss_pred HHHHHHHHHH
Q 034029 32 LIAVALVLLL 41 (105)
Q Consensus 32 LIAvALliLa 41 (105)
|+-++||||.
T Consensus 34 LVIIiLlIml 43 (85)
T PF10717_consen 34 LVIIILLIML 43 (85)
T ss_pred HHHHHHHHHH
Confidence 3334445444
No 90
>PRK10884 SH3 domain-containing protein; Provisional
Probab=27.94 E-value=54 Score=25.53 Aligned_cols=17 Identities=12% Similarity=0.352 Sum_probs=12.9
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 034029 21 YLFTSLALVLVLIAVALV 38 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALl 38 (105)
|+.||+.+.+||| +.|+
T Consensus 174 f~~Gg~v~~~Gll-lGli 190 (206)
T PRK10884 174 FMYGGGVAGIGLL-LGLL 190 (206)
T ss_pred HHHchHHHHHHHH-HHHH
Confidence 6788999999988 4444
No 91
>TIGR03363 VI_chp_8 type VI secretion-associated protein, ImpA family. This protein family is one of two related families in type VI secretion systems that contain an ImpA-related N-terminal domain (pfam06812).
Probab=27.65 E-value=30 Score=28.48 Aligned_cols=9 Identities=67% Similarity=1.449 Sum_probs=7.6
Q ss_pred cCchHHHHH
Q 034029 16 HSPIPYLFT 24 (105)
Q Consensus 16 ~SPvPYLFg 24 (105)
|||||||.=
T Consensus 313 hSPvp~Ll~ 321 (353)
T TIGR03363 313 HSPVPYLIE 321 (353)
T ss_pred CCcHHHHHH
Confidence 899999863
No 92
>PRK15065 PTS system mannose-specific transporter subunit IIC; Provisional
Probab=27.46 E-value=1e+02 Score=25.00 Aligned_cols=27 Identities=15% Similarity=0.437 Sum_probs=18.8
Q ss_pred chHHHHHHHHHHHHH----HHHHHHHHHHhh
Q 034029 18 PIPYLFTSLALVLVL----IAVALVLLLCSY 44 (105)
Q Consensus 18 PvPYLFgGLA~MlgL----IAvALliLaCSy 44 (105)
=.||+|.|+.+.--| +++|++-.++.+
T Consensus 206 ~~~ff~lGFvl~ayl~l~~l~iAiig~~iA~ 236 (262)
T PRK15065 206 LMPFFYLGFVLAAFTNLNLIALGVIGVVLAL 236 (262)
T ss_pred hHHHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence 379999999876444 666666555554
No 93
>TIGR03054 photo_alph_chp1 putative photosynthetic complex assembly protein. In twenty or so anoxygenic photosynthetic alpha-Proteobacteria known so far, a gene for a member of this protein family is present and is found in the vicinity of puhA, which encodes a component of the photosynthetic reaction center, and other genes associated with photosynthesis. This protein family is suggested, consequently, as a probable assembly factor for the photosynthetic reaction center, but its seems its actual function has not yet been demonstrated.
Probab=27.30 E-value=1.4e+02 Score=22.18 Aligned_cols=25 Identities=16% Similarity=0.174 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccCC
Q 034029 25 SLALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 25 GLA~MlgLIAvALliLaCSy~K~~s 49 (105)
-|-+|++|+.+++.+.+.+++....
T Consensus 3 ~l~a~~~Lvl~~~~lva~a~~Tg~~ 27 (135)
T TIGR03054 3 LLIAMLGLVLLTFALVAFAVLTGVG 27 (135)
T ss_pred HHHHHHHHHHHHHHHhheeeecCCC
Confidence 4678999999999999999988444
No 94
>cd01059 CCC1_like CCC1-related family of proteins. CCC1_like: This protein family includes the proteins related to CCC1, a yeast vacuole transmembrane protein responsible for the iron and manganese transport from the cytosol into vacuole. It also includes the proteins similar to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation.
Probab=27.09 E-value=1.3e+02 Score=21.49 Aligned_cols=30 Identities=40% Similarity=0.518 Sum_probs=15.7
Q ss_pred hHHHHHH---HHHHHHH---HHHHHHHHHHhhcccC
Q 034029 19 IPYLFTS---LALVLVL---IAVALVLLLCSYHKRY 48 (105)
Q Consensus 19 vPYLFgG---LA~MlgL---IAvALliLaCSy~K~~ 48 (105)
.||+|.. ++..+.+ ..++|+++.....|.+
T Consensus 79 lp~~~~~~~~~a~~~si~~~~~~~l~~~g~~~~~~~ 114 (143)
T cd01059 79 LPYLLLPAGSLALAVSVALVVALALFLLGAFVAKLG 114 (143)
T ss_pred HHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 4787763 3444433 3455555555555543
No 95
>PF04133 Vps55: Vacuolar protein sorting 55 ; InterPro: IPR007262 Vps55 is involved in the secretion of the Golgi form of the soluble vacuolar carboxypeptidase Y, but not the trafficking of the membrane-bound vacuolar alkaline phosphatase. Both Vps55 and obesity receptor gene-related protein are important for functioning membrane trafficking to the vacuole/lysosome of eukaryotic cells [].
Probab=26.93 E-value=72 Score=23.00 Aligned_cols=18 Identities=33% Similarity=0.593 Sum_probs=14.3
Q ss_pred HHHHHHHHHHHHHhhccc
Q 034029 30 LVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 30 lgLIAvALliLaCSy~K~ 47 (105)
++-|++-|+||+|.-+|+
T Consensus 7 ~~aiG~lL~IL~CAL~~n 24 (120)
T PF04133_consen 7 FLAIGFLLVILSCALYKN 24 (120)
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 455788899999988776
No 96
>PLN00090 photosystem II reaction center M protein; Provisional
Probab=26.68 E-value=57 Score=23.71 Aligned_cols=12 Identities=33% Similarity=0.229 Sum_probs=7.5
Q ss_pred HHHHHHHHHHHH
Q 034029 29 VLVLIAVALVLL 40 (105)
Q Consensus 29 MlgLIAvALliL 40 (105)
.+|+||.+|.||
T Consensus 75 iLafIATaLFIl 86 (113)
T PLN00090 75 FGAYLAVALGTF 86 (113)
T ss_pred HHHHHHHHHHHH
Confidence 456666666665
No 97
>CHL00066 psbH photosystem II protein H
Probab=26.59 E-value=94 Score=21.18 Aligned_cols=21 Identities=29% Similarity=0.532 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 034029 26 LALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K 46 (105)
.++.|+|+|+.|+|+.=-|..
T Consensus 43 Mgv~m~lf~vfl~iiLeiyNs 63 (73)
T CHL00066 43 MGVAMALFAVFLSIILEIYNS 63 (73)
T ss_pred HHHHHHHHHHHHHHHHHHhCc
Confidence 467788999999988755543
No 98
>PF07589 VPEP: PEP-CTERM motif; InterPro: IPR013424 This entry describes a 25-residue region including an invariant Pro-Glu-Pro (PEP) motif, a thirteen residue strongly hydrophobic sequence likely to span the membrane, and a five-residue strongly basic motif that often contains four Arg residues. In most cases, this motif is found within nine residues of the C-terminal end of the protein. Proteins containing this motif typically have signal sequences at the N terminus [].
Probab=26.36 E-value=90 Score=16.69 Aligned_cols=11 Identities=27% Similarity=0.395 Sum_probs=4.4
Q ss_pred HHHHHHHHHHH
Q 034029 32 LIAVALVLLLC 42 (105)
Q Consensus 32 LIAvALliLaC 42 (105)
|+.+.|+.++.
T Consensus 10 l~~~gl~~l~~ 20 (25)
T PF07589_consen 10 LLGLGLLGLAF 20 (25)
T ss_pred HHHHHHHHHHH
Confidence 33334444444
No 99
>PF12259 DUF3609: Protein of unknown function (DUF3609); InterPro: IPR022048 This domain family is found in eukaryotes and viruses, and is typically between 348 and 360 amino acids in length.
Probab=26.26 E-value=48 Score=27.92 Aligned_cols=23 Identities=30% Similarity=0.332 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHhhcccCC
Q 034029 26 LALVLVLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K~~s 49 (105)
....++||++ |+.|+|-|++.++
T Consensus 303 v~~~~vli~v-l~~~~~~~~~~~~ 325 (361)
T PF12259_consen 303 VCGAIVLIIV-LISLAWLYRTFRR 325 (361)
T ss_pred hhHHHHHHHH-HHHHHhheeehHH
No 100
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=25.92 E-value=1.7e+02 Score=20.88 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=22.1
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 034029 19 IPYLFTSLALVLVLIAVALVLLLCSYH 45 (105)
Q Consensus 19 vPYLFgGLA~MlgLIAvALliLaCSy~ 45 (105)
.|+--..||+.|.+++..|+++.+--+
T Consensus 39 ~pwK~I~la~~Lli~G~~li~~g~l~~ 65 (115)
T PF05915_consen 39 IPWKSIALAVFLLIFGTVLIIIGLLLF 65 (115)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 568889999999999999888876544
No 101
>PF13623 SurA_N_2: SurA N-terminal domain
Probab=25.91 E-value=1.2e+02 Score=22.24 Aligned_cols=18 Identities=22% Similarity=0.508 Sum_probs=12.1
Q ss_pred HHHHHHHHHHHHHHHhhc
Q 034029 28 LVLVLIAVALVLLLCSYH 45 (105)
Q Consensus 28 ~MlgLIAvALliLaCSy~ 45 (105)
+++++|++||+...=+-.
T Consensus 10 lLi~vIglAL~aFIv~d~ 27 (145)
T PF13623_consen 10 LLIIVIGLALFAFIVGDF 27 (145)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 456778888877755543
No 102
>KOG0499 consensus Cyclic nucleotide-gated cation channel CNCG4 [Inorganic ion transport and metabolism; Signal transduction mechanisms]
Probab=25.31 E-value=76 Score=29.75 Aligned_cols=32 Identities=9% Similarity=0.110 Sum_probs=25.2
Q ss_pred CCCcccccCchHHHHHHHHHHHHHHHHHHHHH
Q 034029 9 TAPIDLWHSPIPYLFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 9 ~~~~~~W~SPvPYLFgGLA~MlgLIAvALliL 40 (105)
.|+...=++-.=|+|--++-|||+.+|||||=
T Consensus 418 iG~~P~P~~~~E~Vf~~~~w~mGVFvFslliG 449 (815)
T KOG0499|consen 418 IGGLPEPQTLFEIVFQLLNWFMGVFVFSLLIG 449 (815)
T ss_pred hcCCCCcchHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444445566799999999999999999984
No 103
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=25.28 E-value=29 Score=23.01 Aligned_cols=12 Identities=33% Similarity=0.490 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhh
Q 034029 33 IAVALVLLLCSY 44 (105)
Q Consensus 33 IAvALliLaCSy 44 (105)
.|+.|++|.+.|
T Consensus 24 ~ailLIlf~iyR 35 (64)
T PF01034_consen 24 FAILLILFLIYR 35 (64)
T ss_dssp ------------
T ss_pred HHHHHHHHHHHH
Confidence 344444444444
No 104
>PF01594 UPF0118: Domain of unknown function DUF20; InterPro: IPR002549 This is a family of hypothetical proteins. A number of the sequence records state they are transmembrane proteins or putative permeases. It is not clear what source suggested that these proteins might be permeases and this information should be treated with caution.
Probab=25.09 E-value=1.1e+02 Score=23.51 Aligned_cols=26 Identities=23% Similarity=0.379 Sum_probs=21.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcc
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~K 46 (105)
++||-+++++|....+++...+-.||
T Consensus 302 ~~fG~~G~il~~pi~~~~~~~~~~~~ 327 (327)
T PF01594_consen 302 YLFGFIGLILAPPILAVIKAIFEEYR 327 (327)
T ss_pred HHHHHhHHHHHHHHHHHHHHHHHHhC
Confidence 57888888999988888888777664
No 105
>TIGR03007 pepcterm_ChnLen polysaccharide chain length determinant protein, PEP-CTERM locus subfamily. Members of this protein family belong to the family of polysaccharide chain length determinant proteins (pfam02706). All are found in species that encode the PEP-CTERM/exosortase system predicted to act in protein sorting in a number of Gram-negative bacteria, and are found near the epsH homolog that is the putative exosortase gene.
Probab=25.07 E-value=1.3e+02 Score=25.15 Aligned_cols=30 Identities=23% Similarity=0.007 Sum_probs=23.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhccc
Q 034029 18 PIPYLFTSLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 18 PvPYLFgGLA~MlgLIAvALliLaCSy~K~ 47 (105)
|-+-++.++++++|++.-..+++...++..
T Consensus 411 P~~~~~l~~g~~~Gl~lg~~~~~l~e~ld~ 440 (498)
T TIGR03007 411 PNRPLLMLAGLLGGLGAGIGLAFLLSQLRP 440 (498)
T ss_pred CcHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 666688888899998777777777777654
No 106
>PF15345 TMEM51: Transmembrane protein 51
Probab=25.02 E-value=38 Score=27.46 Aligned_cols=30 Identities=13% Similarity=0.308 Sum_probs=24.2
Q ss_pred cccccCchHHHHHHHHHHHHHHHHHHHHHH
Q 034029 12 IDLWHSPIPYLFTSLALVLVLIAVALVLLL 41 (105)
Q Consensus 12 ~~~W~SPvPYLFgGLA~MlgLIAvALliLa 41 (105)
...=.+-|-|+..|-++||.|+++-|-|--
T Consensus 53 ~ksKt~SVAyVLVG~Gv~LLLLSICL~IR~ 82 (233)
T PF15345_consen 53 LKSKTFSVAYVLVGSGVALLLLSICLSIRD 82 (233)
T ss_pred ccceeEEEEEehhhHHHHHHHHHHHHHHHH
Confidence 344556799999999999999998887754
No 107
>PTZ00201 amastin surface glycoprotein; Provisional
Probab=24.65 E-value=1.4e+02 Score=23.22 Aligned_cols=25 Identities=20% Similarity=0.523 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc
Q 034029 21 YLFTSLALVLVLIAVALVLLLCSYH 45 (105)
Q Consensus 21 YLFgGLA~MlgLIAvALliLaCSy~ 45 (105)
|-+.=.|-.|-+|.+.++.|-|...
T Consensus 153 F~Llv~AW~L~iinii~lllp~~~~ 177 (192)
T PTZ00201 153 FALLVVAWILDILNIIFLLLPCTVP 177 (192)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccC
Confidence 3444467778899999999999433
No 108
>PF06387 Calcyon: D1 dopamine receptor-interacting protein (calcyon); InterPro: IPR009431 This family consists of several D1 dopamine receptor-interacting (calcyon) proteins. D1/D5 dopamine receptors in the basal ganglia, hippocampus, and cerebral cortex modulate motor, reward, and cognitive behaviour. D1-like dopamine receptors likely modulate neocortical and hippocampal neuronal excitability and synaptic function via Ca2+ as well as cAMP-dependent signalling []. Defective calcyon proteins have been implicated in both attention-deficit/hyperactivity disorder (ADHD) [] and schizophrenia.; GO: 0050780 dopamine receptor binding, 0007212 dopamine receptor signaling pathway, 0016021 integral to membrane
Probab=24.42 E-value=57 Score=25.71 Aligned_cols=14 Identities=50% Similarity=0.615 Sum_probs=10.9
Q ss_pred HHHHHHHHHHHHHh
Q 034029 30 LVLIAVALVLLLCS 43 (105)
Q Consensus 30 lgLIAvALliLaCS 43 (105)
-+||++||..|+|=
T Consensus 85 t~lI~~alAfl~Cv 98 (186)
T PF06387_consen 85 TRLIAFALAFLGCV 98 (186)
T ss_pred hHHHHHHHHHHHHH
Confidence 36788888888887
No 109
>TIGR01167 LPXTG_anchor LPXTG-motif cell wall anchor domain. A common feature of this proteins containing this domain appears to be a high proportion of charged and zwitterionic residues immediatedly upstream of the LPXTG motif. This model differs from other descriptions of the LPXTG region by including a portion of that upstream charged region.
Probab=24.35 E-value=1.2e+02 Score=16.20 Aligned_cols=7 Identities=29% Similarity=0.325 Sum_probs=3.3
Q ss_pred HHHHHHH
Q 034029 20 PYLFTSL 26 (105)
Q Consensus 20 PYLFgGL 26 (105)
-+.+.|+
T Consensus 12 ~~~~~G~ 18 (34)
T TIGR01167 12 LLLLLGL 18 (34)
T ss_pred HHHHHHH
Confidence 3444454
No 110
>PF04964 Flp_Fap: Flp/Fap pilin component; InterPro: IPR007047 This entry is for the fimbriae associated protein Flp/Fap pilin component.
Probab=24.20 E-value=72 Score=19.14 Aligned_cols=13 Identities=54% Similarity=0.751 Sum_probs=8.6
Q ss_pred HHHHHHHHHHHHH
Q 034029 27 ALVLVLIAVALVL 39 (105)
Q Consensus 27 A~MlgLIAvALli 39 (105)
|++.++|+++++.
T Consensus 14 ali~alia~~ii~ 26 (46)
T PF04964_consen 14 ALIAALIAVAIIA 26 (46)
T ss_pred HHHHHHHHHHHHH
Confidence 5567777777663
No 111
>PHA03231 glycoprotein BALF4; Provisional
Probab=24.04 E-value=69 Score=30.24 Aligned_cols=24 Identities=33% Similarity=0.470 Sum_probs=18.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhcc
Q 034029 23 FTSLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 23 FgGLA~MlgLIAvALliLaCSy~K 46 (105)
||||+.+|.+||+-++++.=.+|.
T Consensus 704 FGg~~iillvia~vv~v~l~~rr~ 727 (829)
T PHA03231 704 FGGLAIGLLVIAVLVAVFLAYRRV 727 (829)
T ss_pred hHHHHHHHHHHHHhhhhhHHHHHH
Confidence 899999988888777666555543
No 112
>TIGR02830 spore_III_AG stage III sporulation protein AG. CC A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is found in a spore formation operon and is designated stage III sporulation protein AG.
Probab=23.67 E-value=72 Score=24.69 Aligned_cols=17 Identities=35% Similarity=0.579 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHHHH
Q 034029 26 LALVLVLIAVALVLLLC 42 (105)
Q Consensus 26 LA~MlgLIAvALliLaC 42 (105)
+.+.|+||+++|||+.=
T Consensus 5 ~l~il~l~GvlLli~s~ 21 (186)
T TIGR02830 5 YLLVLLLIGLLLLIVSS 21 (186)
T ss_pred HHHHHHHHHHHHHHhhc
Confidence 34567788888888764
No 113
>PRK02624 psbH photosystem II reaction center protein H; Provisional
Probab=23.53 E-value=1.2e+02 Score=20.22 Aligned_cols=21 Identities=33% Similarity=0.634 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 034029 26 LALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K 46 (105)
.++.|+|+++.|+|+.=-|..
T Consensus 31 Mgv~m~Lf~vFl~iiLeIYNs 51 (64)
T PRK02624 31 MAVFMVLFLVFLLIILQIYNQ 51 (64)
T ss_pred HHHHHHHHHHHHHHHHHHhCc
Confidence 466788899999888755543
No 114
>PRK13792 lysozyme inhibitor; Provisional
Probab=23.47 E-value=42 Score=24.61 Aligned_cols=22 Identities=41% Similarity=0.513 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHhhcccC
Q 034029 27 ALVLVLIAVALVLLLCSYHKRY 48 (105)
Q Consensus 27 A~MlgLIAvALliLaCSy~K~~ 48 (105)
++++.|+++++|+-+||.-...
T Consensus 4 ~l~~ll~~~~~lLsaCs~~~~~ 25 (127)
T PRK13792 4 ALWLLLAAVPVVLVACGGSDDD 25 (127)
T ss_pred HHHHHHHHHHhheecccCCCCC
Confidence 3567788888889999987654
No 115
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=23.30 E-value=36 Score=25.01 Aligned_cols=24 Identities=21% Similarity=0.495 Sum_probs=10.2
Q ss_pred cCchHHHHHHH--HHHHHHHHHHHHH
Q 034029 16 HSPIPYLFTSL--ALVLVLIAVALVL 39 (105)
Q Consensus 16 ~SPvPYLFgGL--A~MlgLIAvALli 39 (105)
++|.-|+..++ ++++|+|+|.++|
T Consensus 70 ~~p~~~~~~~iivgvi~~Vi~Iv~~I 95 (179)
T PF13908_consen 70 YDPPIYFITGIIVGVICGVIAIVVLI 95 (179)
T ss_pred cCccccceeeeeeehhhHHHHHHHhH
Confidence 45665522222 2344444444433
No 116
>cd02434 Nodulin-21_like_3 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_3: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=22.82 E-value=1.2e+02 Score=23.45 Aligned_cols=21 Identities=33% Similarity=0.362 Sum_probs=10.8
Q ss_pred HHHHHH-HHHHHHHHHHhhccc
Q 034029 27 ALVLVL-IAVALVLLLCSYHKR 47 (105)
Q Consensus 27 A~MlgL-IAvALliLaCSy~K~ 47 (105)
...+++ -.++|+++-+..-+.
T Consensus 173 ~~s~~~~~~~~L~~~G~~~~~~ 194 (225)
T cd02434 173 ALSILIFVAFTLFLLGSFKSKL 194 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 334444 455666665554443
No 117
>cd02437 CCC1_like_1 CCC1-related protein family. CCC1_like_1: This is a protein family closely related to CCC1, a family of proteins involved in iron and manganese transport. Yeast CCC1 is a vacuole transmembrane protein responsible for the iron and manganese accumulation in vacuole.
Probab=22.71 E-value=1.7e+02 Score=21.61 Aligned_cols=16 Identities=19% Similarity=0.044 Sum_probs=7.9
Q ss_pred HHHHHHHHHHhhcccC
Q 034029 33 IAVALVLLLCSYHKRY 48 (105)
Q Consensus 33 IAvALliLaCSy~K~~ 48 (105)
..++|.++-+.+.|.+
T Consensus 131 ~~~~L~~~G~~~~~~~ 146 (175)
T cd02437 131 VLAILFILGLVIGKIS 146 (175)
T ss_pred HHHHHHHHHHHHHHHc
Confidence 3444555555555543
No 118
>COG4885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.53 E-value=76 Score=26.73 Aligned_cols=23 Identities=30% Similarity=0.352 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhccc
Q 034029 25 SLALVLVLIAVALVLLLCSYHKR 47 (105)
Q Consensus 25 GLA~MlgLIAvALliLaCSy~K~ 47 (105)
|+...++|||+++..||--+|++
T Consensus 289 GF~~~~aL~Av~~~~~a~~rRrs 311 (312)
T COG4885 289 GFEVVFALMAVAGVALARKRRRS 311 (312)
T ss_pred CcHHHHHHHHHHHHHHHHHHhhc
Confidence 77888999999988887666653
No 119
>PF15470 DUF4637: Domain of unknown function (DUF4637)
Probab=22.50 E-value=23 Score=27.44 Aligned_cols=19 Identities=32% Similarity=0.436 Sum_probs=13.2
Q ss_pred CCCcccccCchHHHHHHHHH
Q 034029 9 TAPIDLWHSPIPYLFTSLAL 28 (105)
Q Consensus 9 ~~~~~~W~SPvPYLFgGLA~ 28 (105)
-++||-|-||.- |++||++
T Consensus 89 dsgFWgwlsPfa-Ll~gl~a 107 (173)
T PF15470_consen 89 DSGFWGWLSPFA-LLGGLAA 107 (173)
T ss_pred cCCchhhhcHHH-HhccccC
Confidence 379999999853 4555543
No 120
>cd04821 PA_M28_1_2 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain. At peptidase active sites, the PA domain may participate in substrate binding and/or promoting conformational changes, which influence the stability and accessibility of the site to substrate. Proteins into which the PA domain is inserted include the following members of the peptidase family M28: i) prostate-specific membrane antigen (PSMA), ii) yeast aminopeptidase Y, and ii) human TfR (transferrin receptor)1 and human TfR2. The proteins listed above belong to other subgroups; relatively litt
Probab=22.47 E-value=64 Score=24.06 Aligned_cols=16 Identities=50% Similarity=0.592 Sum_probs=13.4
Q ss_pred CCCCCCCeEEEEecCC
Q 034029 68 KVLDPEPKVVVIMAGD 83 (105)
Q Consensus 68 ~~~~~e~kivVIMAGd 83 (105)
+.+|-+.|||||+.||
T Consensus 44 ~g~DVkGKiVvvl~~~ 59 (157)
T cd04821 44 KGLDVKGKTVVILVND 59 (157)
T ss_pred cCCCcCCcEEEEEcCC
Confidence 3468899999999886
No 121
>PRK11486 flagellar biosynthesis protein FliO; Provisional
Probab=22.37 E-value=2.7e+02 Score=20.33 Aligned_cols=16 Identities=25% Similarity=0.412 Sum_probs=12.3
Q ss_pred CCCCCCeEEEEecCCC
Q 034029 69 VLDPEPKVVVIMAGDD 84 (105)
Q Consensus 69 ~~~~e~kivVIMAGd~ 84 (105)
++-.+|||+||=.||+
T Consensus 61 slG~RErvvvVeV~~~ 76 (124)
T PRK11486 61 SLGARERVVIVDVEDA 76 (124)
T ss_pred ccCCccEEEEEEECCE
Confidence 4566788888888876
No 122
>cd01324 cbb3_Oxidase_CcoQ Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2 and simultaneously pumps protons across the membrane. Found exclusively in proteobacteria, cbb3 is believed to be a modern enzyme that has evolved independently to perform a specialized function in microaerobic energy metabolism. The cbb3 operon contains four genes (ccoNOQP or fixNOQP), with ccoN coding for subunit I. Instead of a CuA-containing subunit II analogous to other cytochrome oxidases, cbb3 utilizes subunits ccoO and ccoP, which contain one and two hemes, respectively, to transfer electrons to the binuclear center. ccoQ, the fourth subunit, is a single transmembrane helix protein. It has been shown to protect the core complex from proteolytic degradation by serine proteases. See cd00919, cd01322
Probab=22.37 E-value=2e+02 Score=17.53 Aligned_cols=28 Identities=14% Similarity=0.082 Sum_probs=18.3
Q ss_pred HHHHHHHHHHH---HHHHHHHHHHhhcccCC
Q 034029 22 LFTSLALVLVL---IAVALVLLLCSYHKRYS 49 (105)
Q Consensus 22 LFgGLA~MlgL---IAvALliLaCSy~K~~s 49 (105)
.+-+++-..|| +++.+.|+.+.||+.+.
T Consensus 6 ~lr~~a~~~~l~~~~~~Figiv~wa~~p~~k 36 (48)
T cd01324 6 TLRGLADSWGLLYLALFFLGVVVWAFRPGRK 36 (48)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCCCcc
Confidence 45566666666 55666777888887544
No 123
>COG3847 Flp Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]
Probab=22.29 E-value=86 Score=20.39 Aligned_cols=14 Identities=36% Similarity=0.494 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHH
Q 034029 27 ALVLVLIAVALVLL 40 (105)
Q Consensus 27 A~MlgLIAvALliL 40 (105)
+++.+||+++++.-
T Consensus 21 glia~lIav~ii~~ 34 (58)
T COG3847 21 GLIAALIAVVIIAG 34 (58)
T ss_pred HHHHHHHHHHHHHH
Confidence 56778888888754
No 124
>TIGR03501 gamma_C_targ gammaproteobacterial enzyme C-terminal transmembrane domain. This homology domain, largely restricted to a subset of the gamma proteobacteria that excludes the enterobacteria, is found at the extreme carboxyl-terminus of a diverse set of proteins, most of which are enzymes with conventional signal sequences and with hydrolytic activities: nucleases, proteases, agarases, etc. Species that have this domain at all typically have from two to fifteen proteins tagged with this domain at the C-terminus. The agarase AgaA from Vibro sp. strain JT0107 is secreted into the medium, while the same protein heterologously expressed in E. coli is retained in the cell fraction. This suggests cleavage and release in species with this domain. Both this suggestion, and the chemical structure of the domain (motif, hydrophobic predicted transmembrane helix, cluster of basic residues) closely parallels that of the LPXTG/sortase system and the PEP-CTERM/exosortase(EpsH) system.
Probab=22.19 E-value=1e+02 Score=16.86 Aligned_cols=17 Identities=29% Similarity=0.387 Sum_probs=9.3
Q ss_pred HHHHHHHHHHHHHhhcc
Q 034029 30 LVLIAVALVLLLCSYHK 46 (105)
Q Consensus 30 lgLIAvALliLaCSy~K 46 (105)
||..++.+|.+..-+||
T Consensus 5 lGwl~LllL~~~~~rRr 21 (26)
T TIGR03501 5 LGWLSLLLLLLLGLRRR 21 (26)
T ss_pred HHHHHHHHHHHHHHHHh
Confidence 45566656655554444
No 125
>PF11153 DUF2931: Protein of unknown function (DUF2931); InterPro: IPR021326 Some members in this family of proteins are annotated as lipoproteins however this cannot be confirmed. Currently, there is no known function.
Probab=22.18 E-value=72 Score=24.07 Aligned_cols=19 Identities=26% Similarity=0.396 Sum_probs=14.2
Q ss_pred HHHHHHHHHHHHhhcccCC
Q 034029 31 VLIAVALVLLLCSYHKRYS 49 (105)
Q Consensus 31 gLIAvALliLaCSy~K~~s 49 (105)
.+|++.|++.+|+..+...
T Consensus 5 ~~l~l~lll~~C~~~~~~~ 23 (216)
T PF11153_consen 5 LLLLLLLLLTGCSTNPNEP 23 (216)
T ss_pred HHHHHHHHHHhhcCCCccC
Confidence 3455888999999877553
No 126
>PF10577 UPF0560: Uncharacterised protein family UPF0560; InterPro: IPR018890 This family of proteins has no known function.
Probab=22.15 E-value=1.2e+02 Score=28.77 Aligned_cols=24 Identities=25% Similarity=0.539 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Q 034029 20 PYLFTSLALVLVLIAVALVLLLCS 43 (105)
Q Consensus 20 PYLFgGLA~MlgLIAvALliLaCS 43 (105)
=||.+-|+.|+.|+-+-|-+|.|.
T Consensus 273 ~fLl~ILG~~~livl~lL~vLl~y 296 (807)
T PF10577_consen 273 VFLLAILGGTALIVLILLCVLLCY 296 (807)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 456666666666555555555553
No 127
>PLN00055 photosystem II reaction center protein H; Provisional
Probab=21.79 E-value=1.3e+02 Score=20.49 Aligned_cols=21 Identities=29% Similarity=0.532 Sum_probs=15.3
Q ss_pred HHHHHHHHHHHHHHHHHhhcc
Q 034029 26 LALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 26 LA~MlgLIAvALliLaCSy~K 46 (105)
.++.|+|+|+.|+|+.=-|..
T Consensus 43 Mg~~m~lf~vfl~iileiyNs 63 (73)
T PLN00055 43 MGVAMALFAVFLSIILEIYNS 63 (73)
T ss_pred HHHHHHHHHHHHHHHHHHhcc
Confidence 466788899999888755543
No 128
>TIGR03750 conj_TIGR03750 conjugative transfer region protein, TIGR03750 family. Members of this protein family are found occasionally on plasmids. Usually, however, they are found on the bacterial main chromosome in regions flanked by markers of conjugative transfer and/or transposition.
Probab=21.75 E-value=1.6e+02 Score=21.19 Aligned_cols=28 Identities=25% Similarity=0.222 Sum_probs=18.8
Q ss_pred hHHHHHHHHH--HHHHHHHHHHHHHHhhcc
Q 034029 19 IPYLFTSLAL--VLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 19 vPYLFgGLA~--MlgLIAvALliLaCSy~K 46 (105)
.-+++++++. ...+|.++|.|+.|..+-
T Consensus 41 l~~~~~~w~~~p~~~lig~~l~v~~gg~~l 70 (111)
T TIGR03750 41 LALLAGPWALIPTGALLGPILVVLIGGKLL 70 (111)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 3355555554 456788888899988743
No 129
>PF00822 PMP22_Claudin: PMP-22/EMP/MP20/Claudin family; InterPro: IPR004031 Several vertebrate small integral membrane glycoproteins are evolutionary related [, , ], including eye lens specific membrane protein 20 (MP20 or MP19); epithelial membrane protein-1 (EMP-1), which is also known as tumor-associated membrane protein (TMP) or as squamous cell-specific protein Cl-20; epithelial membrane protein-2 (EMP-2), which is also known as XMP; epithelial membrane protein-3 (EMP-3), also known as YMP; and peripheral myelin protein 22 (PMP-22), which is expressed in many tissues but mainly by Schwann cells as a component of myelin of the peripheral nervous system (PNS). PMP-22 probably plays a role both in myelinization and in cell proliferation. Mutations affecting PMP-22 are associated with hereditary motor and sensory neuropathies such as Charcot-Marie-Tooth disease type 1A (CMT-1A) in human or the trembler phenotype in mice. The proteins of this family are about 160 to 173 amino acid residues in size, and contain four transmembrane segments. PMP-22, EMP-1, -2 and -3 are highly similar, while MP20 is more distantly related. This family also includes the claudins, which are components of tight junctions.; GO: 0016020 membrane
Probab=21.52 E-value=1.6e+02 Score=20.35 Aligned_cols=30 Identities=23% Similarity=0.175 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHHHH-Hh-hcccCCCC
Q 034029 22 LFTSLALVLVLIAVALVLLL-CS-YHKRYSNS 51 (105)
Q Consensus 22 LFgGLA~MlgLIAvALliLa-CS-y~K~~s~s 51 (105)
+.....+++.+.++++++.+ .+ +|+..+..
T Consensus 3 ~q~~~~~~~~~~~~~~liva~~~~~W~~~~~~ 34 (166)
T PF00822_consen 3 LQLAGFIVSSLGWLALLIVATATPYWRVSNVS 34 (166)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCchHheEecCc
Confidence 34444555666666655443 56 88876654
No 130
>PF06716 DUF1201: Protein of unknown function (DUF1201); InterPro: IPR009591 This entry consists of several Beet yellows virus (BYV) putative membrane-binding proteins of around 54 residues in length. The function of this currently unknown.
Probab=21.42 E-value=1.7e+02 Score=18.67 Aligned_cols=27 Identities=19% Similarity=0.519 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHH-HHHHHHHHHhhcc
Q 034029 20 PYLFTSLALVLVLI-AVALVLLLCSYHK 46 (105)
Q Consensus 20 PYLFgGLA~MlgLI-AvALliLaCSy~K 46 (105)
.||..|+++.+-|. +++....+.-|++
T Consensus 7 s~L~~~F~~lIC~Fl~~~~~F~~F~~Kq 34 (54)
T PF06716_consen 7 SYLLLAFGFLICLFLFCLVVFIWFVYKQ 34 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 48899999887774 4443334444444
No 131
>cd02433 Nodulin-21_like_2 Nodulin-21 and CCC1-related protein family. Nodulin-21_like_2: This is a family of proteins closely related to nodulin-21, a plant nodule-specific protein that may be involved in symbiotic nitrogen fixation. This family is also related to CCC1, a yeast vacuole transmembrane protein that functions as an iron and manganese transporter.
Probab=21.19 E-value=1.9e+02 Score=22.77 Aligned_cols=27 Identities=30% Similarity=0.485 Sum_probs=12.9
Q ss_pred HHHHH-----HHHHHHHHHHHHHHHHHHhhcc
Q 034029 20 PYLFT-----SLALVLVLIAVALVLLLCSYHK 46 (105)
Q Consensus 20 PYLFg-----GLA~MlgLIAvALliLaCSy~K 46 (105)
||+|. ++.+.+++..++|+++-+..-|
T Consensus 171 Pf~~~~~~~~~~~~s~~~~~~~L~~lG~~~a~ 202 (234)
T cd02433 171 PFLFGMSGLAALVLSVLLVGLALLATGAVTGL 202 (234)
T ss_pred HHHHhcchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 67652 3333344445555555544433
No 132
>cd07387 MPP_PolD2_C PolD2 (DNA polymerase delta, subunit 2), C-terminal domain. PolD2 (DNA polymerase delta, subunit 2) is an auxiliary subunit of the eukaryotic DNA polymerase delta (PolD) complex thought to play a regulatory role and to serve as a scaffold for PolD assembly by interacting simultaneously with all of the other three subunits. PolD2 is catalytically inactive and lacks the active site residues required for phosphoesterase activity in other members of this superfamily. PolD2 is also involved in the recruitment of several proteins regulating DNA metabolism, including p21, PDIP1, PDIP38, PDIP46, and WRN. Human PolD consists of four subunits: p125 (PolD1), p50 (PolD2), p66(PolD3), and p12(PolD4). PolD is one of three major replicases in eukaryotes. PolD also plays an essential role in translesion DNA synthesis, homologous recombination, and DNA repair. Within the PolD complex, PolD2 tightly associates with PolD3. PolD2 belongs to the metallophosphatase (MPP) superfamily
Probab=20.63 E-value=60 Score=26.01 Aligned_cols=16 Identities=25% Similarity=0.345 Sum_probs=14.1
Q ss_pred EEEecCCCCCccceec
Q 034029 77 VVIMAGDDKPRYLATQ 92 (105)
Q Consensus 77 vVIMAGd~~PTfLAkP 92 (105)
|+||+|++-|+=.+-|
T Consensus 97 V~imPG~~Dp~~~~lP 112 (257)
T cd07387 97 VDLMPGEFDPANHSLP 112 (257)
T ss_pred EEECCCCCCcccccCC
Confidence 7899999999998855
No 133
>PHA02337 putative high light inducible protein
Probab=20.60 E-value=2e+02 Score=16.97 Aligned_cols=21 Identities=14% Similarity=0.173 Sum_probs=14.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHH
Q 034029 19 IPYLFTSLALVLVLIAVALVLL 40 (105)
Q Consensus 19 vPYLFgGLA~MlgLIAvALliL 40 (105)
-+=.+-|=.+|+|+++ +|++-
T Consensus 4 ~aE~~NGRlAMiGfv~-~~~~e 24 (35)
T PHA02337 4 EAEIFNGWLAMIGFVA-AVGAY 24 (35)
T ss_pred HHHHHhhHHHHHHHHH-HHHHH
Confidence 3446678899999988 44443
No 134
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=20.38 E-value=68 Score=17.64 Aligned_cols=19 Identities=32% Similarity=0.588 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034029 25 SLALVLVLIAVALVLLLCSY 44 (105)
Q Consensus 25 GLA~MlgLIAvALliLaCSy 44 (105)
|+|+++.|. +-|+|.-||+
T Consensus 5 ~FalivVLF-ILLiIvG~s~ 23 (24)
T PF09680_consen 5 GFALIVVLF-ILLIIVGASC 23 (24)
T ss_pred cchhHHHHH-HHHHHhccee
Confidence 455555543 3356667765
No 135
>PRK13415 flagella biosynthesis protein FliZ; Provisional
Probab=20.15 E-value=1.8e+02 Score=23.32 Aligned_cols=25 Identities=16% Similarity=0.299 Sum_probs=12.7
Q ss_pred CCCcccccCchHHHHHHHHHHHHHHHH
Q 034029 9 TAPIDLWHSPIPYLFTSLALVLVLIAV 35 (105)
Q Consensus 9 ~~~~~~W~SPvPYLFgGLA~MlgLIAv 35 (105)
+++.+.|. +-=++++|+++++||.+
T Consensus 60 ~~~~s~~~--l~qmi~aL~~VI~Liy~ 84 (219)
T PRK13415 60 ASSVSAFD--FVKLIGATLFVIFLIYA 84 (219)
T ss_pred CCCccHHH--HHHHHHHHHHHHHHHHH
Confidence 35555564 33356666555444433
No 136
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=20.15 E-value=1.3e+02 Score=19.68 Aligned_cols=19 Identities=11% Similarity=0.385 Sum_probs=12.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034029 20 PYLFTSLALVLVLIAVALV 38 (105)
Q Consensus 20 PYLFgGLA~MlgLIAvALl 38 (105)
-|+...++.+||.|++.-+
T Consensus 4 l~~Lipvsi~l~~v~l~~f 22 (58)
T COG3197 4 LYILIPVSILLGAVGLGAF 22 (58)
T ss_pred eeeHHHHHHHHHHHHHHHH
Confidence 4667777777776554433
Done!