Query psy4622
Match_columns 84
No_of_seqs 101 out of 135
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 21:33:42 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4622.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4622hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF08693 SKG6: Transmembrane a 94.3 0.026 5.6E-07 32.8 1.4 29 6-34 10-38 (40)
2 PF01034 Syndecan: Syndecan do 91.7 0.058 1.2E-06 34.3 0.2 50 7-57 9-63 (64)
3 PF11770 GAPT: GRB2-binding ad 91.5 0.17 3.6E-06 37.1 2.5 36 10-50 11-46 (158)
4 PF12191 stn_TNFRSF12A: Tumour 91.4 0.067 1.5E-06 38.0 0.4 25 21-49 90-114 (129)
5 PF07095 IgaA: Intracellular g 90.8 0.053 1.1E-06 47.1 -0.7 46 12-58 5-51 (705)
6 PF14610 DUF4448: Protein of u 90.4 0.12 2.7E-06 36.9 0.9 26 7-32 156-181 (189)
7 PF14828 Amnionless: Amnionles 90.0 0.48 1E-05 38.8 4.2 46 9-55 340-402 (437)
8 PF02064 MAS20: MAS20 protein 87.9 0.16 3.4E-06 35.3 0.0 30 19-55 3-32 (121)
9 PF05337 CSF-1: Macrophage col 87.8 0.16 3.5E-06 40.1 0.0 42 9-51 226-267 (285)
10 KOG1215|consensus 87.5 0.3 6.5E-06 41.8 1.4 52 21-73 798-853 (877)
11 PF15102 TMEM154: TMEM154 prot 85.7 0.55 1.2E-05 33.9 1.8 29 10-38 58-88 (146)
12 PF01299 Lamp: Lysosome-associ 84.4 0.85 1.8E-05 34.8 2.4 20 19-38 282-301 (306)
13 TIGR00985 3a0801s04tom mitocho 82.6 0.32 7E-06 34.9 -0.5 29 19-54 13-41 (148)
14 PF01102 Glycophorin_A: Glycop 82.1 0.18 3.9E-06 35.2 -1.9 30 7-36 64-93 (122)
15 PF08114 PMP1_2: ATPase proteo 82.1 0.18 3.9E-06 29.8 -1.6 34 1-38 3-36 (43)
16 PF15102 TMEM154: TMEM154 prot 80.9 2.2 4.7E-05 30.9 3.3 11 72-82 120-130 (146)
17 PTZ00382 Variant-specific surf 70.7 4 8.6E-05 27.0 2.2 22 5-26 64-85 (96)
18 PF06024 DUF912: Nucleopolyhed 66.3 14 0.0003 24.4 4.1 29 11-39 65-93 (101)
19 KOG1226|consensus 63.9 2.5 5.5E-05 37.5 0.3 27 6-32 709-735 (783)
20 PF14283 DUF4366: Domain of un 63.1 10 0.00022 28.6 3.3 20 19-38 167-186 (218)
21 PF15330 SIT: SHP2-interacting 61.8 1.6 3.5E-05 29.6 -1.0 9 28-36 18-26 (107)
22 COG3197 FixS Uncharacterized p 60.3 3.7 8E-05 25.6 0.5 21 10-30 3-23 (58)
23 PF02480 Herpes_gE: Alphaherpe 60.3 2.9 6.2E-05 34.3 0.0 22 33-54 378-400 (439)
24 PF02009 Rifin_STEVOR: Rifin/s 58.9 1.5 3.2E-05 34.5 -1.8 18 19-36 266-283 (299)
25 PF14257 DUF4349: Domain of un 58.0 5.4 0.00012 29.5 1.1 21 13-33 242-262 (262)
26 PF11084 DUF2621: Protein of u 55.6 1.3 2.7E-05 32.0 -2.5 18 19-36 16-33 (141)
27 TIGR00847 ccoS cytochrome oxid 55.4 4.2 9.1E-05 24.5 0.1 21 10-30 3-23 (51)
28 PHA03099 epidermal growth fact 55.1 7 0.00015 28.1 1.3 29 9-38 101-129 (139)
29 PF03597 CcoS: Cytochrome oxid 54.7 5.3 0.00012 23.4 0.5 21 10-30 2-22 (45)
30 KOG4056|consensus 54.0 6.1 0.00013 28.6 0.8 30 19-55 15-44 (143)
31 PF06809 NPDC1: Neural prolife 53.7 21 0.00045 29.1 3.8 18 19-36 209-226 (341)
32 PRK15324 type III secretion sy 51.9 3.5 7.7E-05 31.6 -0.7 26 23-48 221-246 (252)
33 COG3117 Uncharacterized protei 51.2 8.6 0.00019 28.8 1.2 35 16-51 9-43 (188)
34 PF05454 DAG1: Dystroglycan (D 49.2 5.6 0.00012 31.3 0.0 16 19-34 157-172 (290)
35 TIGR01167 LPXTG_anchor LPXTG-m 49.1 13 0.00029 19.2 1.5 15 21-35 18-32 (34)
36 PF11118 DUF2627: Protein of u 49.0 12 0.00026 24.5 1.5 22 20-42 51-72 (77)
37 PF04639 Baculo_E56: Baculovir 48.9 17 0.00037 29.2 2.7 26 12-38 279-304 (305)
38 PF03302 VSP: Giardia variant- 48.7 8.1 0.00018 31.0 0.8 25 5-32 365-389 (397)
39 COG5294 Uncharacterized protei 48.3 27 0.00059 24.4 3.3 37 23-59 13-49 (113)
40 COG3115 ZipA Cell division pro 45.4 12 0.00026 30.2 1.3 34 19-54 12-45 (324)
41 PF10883 DUF2681: Protein of u 44.4 2.2 4.7E-05 28.3 -2.6 22 19-40 10-31 (87)
42 PRK10476 multidrug resistance 43.9 13 0.00028 28.3 1.3 34 2-36 2-35 (346)
43 PF14654 Epiglycanin_C: Mucin, 43.8 16 0.00034 25.3 1.5 45 3-52 9-59 (106)
44 PF14316 DUF4381: Domain of un 43.4 3.6 7.9E-05 28.2 -1.7 26 19-54 29-54 (146)
45 PF06365 CD34_antigen: CD34/Po 43.3 12 0.00027 28.1 1.0 17 19-35 112-128 (202)
46 COG2976 Uncharacterized protei 41.6 2.4 5.2E-05 32.2 -3.0 25 19-43 26-50 (207)
47 PRK12785 fliL flagellar basal 41.5 43 0.00093 23.7 3.5 10 25-34 40-49 (166)
48 PF11821 DUF3341: Protein of u 41.3 13 0.00028 27.1 0.9 40 21-62 106-145 (173)
49 PF03908 Sec20: Sec20; InterP 41.2 10 0.00022 24.2 0.3 16 19-34 76-91 (92)
50 PF07889 DUF1664: Protein of u 41.0 26 0.00057 24.5 2.3 11 26-36 19-29 (126)
51 PF15050 SCIMP: SCIMP protein 40.5 4 8.7E-05 29.1 -1.8 45 11-56 8-54 (133)
52 PF08725 Integrin_b_cyt: Integ 39.5 12 0.00027 21.9 0.4 10 45-54 27-36 (47)
53 TIGR03503 conserved hypothetic 39.2 29 0.00063 28.4 2.6 18 19-36 356-373 (374)
54 PF10661 EssA: WXG100 protein 39.0 6 0.00013 28.0 -1.1 24 11-34 119-142 (145)
55 PRK01741 cell division protein 37.0 8.9 0.00019 31.0 -0.6 20 19-38 11-30 (332)
56 PF03918 CcmH: Cytochrome C bi 37.0 12 0.00026 26.5 0.1 33 6-39 98-130 (148)
57 PF13703 PepSY_TM_2: PepSY-ass 35.7 13 0.00028 23.3 0.1 32 19-51 26-57 (88)
58 PF04901 RAMP: Receptor activi 35.5 13 0.00028 25.6 0.1 30 4-36 80-109 (113)
59 PF05423 Mycobact_memb: Mycoba 35.4 31 0.00067 24.3 2.0 19 16-35 8-26 (140)
60 PHA02681 ORF089 virion membran 35.3 8.6 0.00019 25.9 -0.8 18 19-36 11-28 (92)
61 PF10694 DUF2500: Protein of u 34.7 13 0.00028 24.6 0.0 23 19-42 7-32 (110)
62 PF05808 Podoplanin: Podoplani 34.5 13 0.00028 27.3 0.0 30 8-38 130-159 (162)
63 PF13194 DUF4010: Domain of un 33.6 14 0.00029 27.4 -0.0 23 27-49 100-123 (211)
64 PF06796 NapE: Periplasmic nit 32.1 13 0.00029 22.9 -0.2 19 13-32 27-45 (56)
65 TIGR02205 septum_zipA cell div 32.1 33 0.00072 26.9 1.9 29 19-49 10-38 (284)
66 PF02773 S-AdoMet_synt_C: S-ad 31.3 18 0.00039 26.0 0.3 16 40-55 110-125 (138)
67 TIGR02878 spore_ypjB sporulati 30.8 20 0.00043 27.8 0.4 24 11-36 201-224 (233)
68 PRK11638 lipopolysaccharide bi 30.5 51 0.0011 26.2 2.7 31 3-35 310-340 (342)
69 PF09307 MHC2-interact: CLIP, 30.3 17 0.00037 25.2 0.0 27 9-36 34-60 (114)
70 PRK02565 photosystem II reacti 30.3 69 0.0015 18.6 2.5 28 6-34 4-31 (39)
71 PHA02902 putative IMV membrane 29.7 9.6 0.00021 24.6 -1.2 18 19-36 11-28 (70)
72 PF04478 Mid2: Mid2 like cell 28.6 57 0.0012 23.8 2.5 12 38-49 78-89 (154)
73 smart00135 LY Low-density lipo 28.1 15 0.00032 18.8 -0.5 27 21-47 14-40 (43)
74 PTZ00208 65 kDa invariant surf 27.9 34 0.00073 28.7 1.3 29 6-35 385-413 (436)
75 COG1580 FliL Flagellar basal b 27.7 36 0.00077 24.5 1.3 23 10-32 17-39 (159)
76 PF00058 Ldl_recept_b: Low-den 27.4 47 0.001 18.2 1.5 25 29-54 2-27 (42)
77 KOG3145|consensus 25.8 50 0.0011 27.1 1.9 26 21-46 124-158 (372)
78 PF15012 DUF4519: Domain of un 25.7 56 0.0012 20.2 1.7 21 11-32 31-51 (56)
79 PF11857 DUF3377: Domain of un 25.2 51 0.0011 21.4 1.6 22 6-27 27-48 (74)
80 PHA03265 envelope glycoprotein 25.0 14 0.00029 30.7 -1.4 22 14-36 355-376 (402)
81 TIGR02972 TMAO_torE trimethyla 24.9 22 0.00047 21.3 -0.2 19 13-32 19-37 (47)
82 COG4459 NapE Periplasmic nitra 24.7 20 0.00044 22.6 -0.4 18 14-32 31-48 (62)
83 COG4649 Uncharacterized protei 24.4 59 0.0013 25.0 2.0 23 13-36 29-51 (221)
84 PF05283 MGC-24: Multi-glycosy 24.4 26 0.00057 26.0 0.1 28 8-36 158-185 (186)
85 PF05568 ASFV_J13L: African sw 24.0 24 0.00053 26.2 -0.1 11 39-49 64-74 (189)
86 PF14991 MLANA: Protein melan- 23.7 22 0.00048 25.0 -0.4 30 20-49 35-67 (118)
87 COG5603 TRS20 Subunit of TRAPP 23.4 31 0.00068 24.7 0.3 8 46-53 12-19 (136)
88 KOG3540|consensus 23.3 28 0.00062 30.1 0.1 28 14-41 553-580 (615)
89 PF14575 EphA2_TM: Ephrin type 22.6 18 0.0004 22.8 -0.9 10 27-36 19-28 (75)
90 PF07092 DUF1356: Protein of u 22.6 1.3E+02 0.0027 23.3 3.5 15 40-54 127-141 (238)
91 PF14055 NVEALA: NVEALA protei 22.2 96 0.0021 18.7 2.3 26 22-47 13-39 (65)
92 KOG4550|consensus 22.2 24 0.00052 30.3 -0.5 17 19-35 571-587 (606)
93 TIGR02973 nitrate_rd_NapE peri 22.0 27 0.00058 20.4 -0.2 19 13-32 14-32 (42)
94 PF12259 DUF3609: Protein of u 21.9 44 0.00095 26.9 0.9 19 29-49 317-335 (361)
95 PHA02777 major capsid L1 prote 21.9 47 0.001 28.5 1.2 12 40-51 310-321 (555)
96 PF06040 Adeno_E3: Adenovirus 21.4 75 0.0016 22.6 1.9 9 29-37 118-126 (127)
97 PF13396 PLDc_N: Phospholipase 20.9 1.2E+02 0.0025 16.6 2.3 26 7-34 20-45 (46)
98 KOG3653|consensus 20.7 29 0.00062 29.9 -0.4 31 7-37 151-183 (534)
99 PHA02898 virion envelope prote 20.5 14 0.00031 25.0 -1.8 46 5-53 41-86 (92)
100 PRK03598 putative efflux pump 20.1 73 0.0016 24.0 1.8 21 19-39 12-32 (331)
No 1
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=94.29 E-value=0.026 Score=32.84 Aligned_cols=29 Identities=21% Similarity=0.415 Sum_probs=16.8
Q ss_pred CCceeehhHHHHHHHHHHHhheeeeEEEe
Q psy4622 6 SGMVAFVVILVCTIILLLSGLICLIVYRH 34 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~~~l~wR~ 34 (84)
+-.++..+++|+.++++++.++.|++||+
T Consensus 10 ~vaIa~~VvVPV~vI~~vl~~~l~~~~rR 38 (40)
T PF08693_consen 10 TVAIAVGVVVPVGVIIIVLGAFLFFWYRR 38 (40)
T ss_pred eEEEEEEEEechHHHHHHHHHHhheEEec
Confidence 44566777889844444444555555554
No 2
>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=91.67 E-value=0.058 Score=34.25 Aligned_cols=50 Identities=22% Similarity=0.374 Sum_probs=3.9
Q ss_pred CceeehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCC-----ccccccccc
Q psy4622 7 GMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNP-----VYRKTTEDQ 57 (84)
Q Consensus 7 g~~al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNP-----VYrKTTEd~ 57 (84)
+..+..|...++.+++.++++.+++||-. .|+--|-+.|-| -|+|++-.|
T Consensus 9 ~vlaavIaG~Vvgll~ailLIlf~iyR~r-kkdEGSY~l~e~K~s~~~Y~k~~~~e 63 (64)
T PF01034_consen 9 EVLAAVIAGGVVGLLFAILLILFLIYRMR-KKDEGSYDLDEPKPSNYAYQKAPTKE 63 (64)
T ss_dssp ----------------------------S-------SS--S-----------SSS-
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hcCCCCccCCCCCccccccccCCcCC
Confidence 34444443333245556667778888765 477667677654 687765443
No 3
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=91.48 E-value=0.17 Score=37.10 Aligned_cols=36 Identities=25% Similarity=0.307 Sum_probs=19.5
Q ss_pred eehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCCcc
Q psy4622 10 AFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVY 50 (84)
Q Consensus 10 al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVY 50 (84)
++.|.+.+ +++.++|.+|.+|+ |++|+ +|+|.=|-+
T Consensus 11 ~i~igi~L-l~lLl~cgiGcvwh--wkhr~--~~~ftLPkf 46 (158)
T PF11770_consen 11 AISIGISL-LLLLLLCGIGCVWH--WKHRD--STRFTLPKF 46 (158)
T ss_pred HHHHHHHH-HHHHHHHhcceEEE--eeccC--ccccchHHH
Confidence 33344444 55666677766665 44433 457766643
No 4
>PF12191 stn_TNFRSF12A: Tumour necrosis factor receptor stn_TNFRSF12A_TNFR domain; InterPro: IPR022316 The tumour necrosis factor (TNF) receptor (TNFR) superfamily comprises more than 20 type-I transmembrane proteins. Family members are defined based on similarity in their extracellular domain - a region that contains many cysteine residues arranged in a specific repetitive pattern []. The cysteines allow formation of an extended rod-like structure, responsible for ligand binding []. Upon receptor activation, different intracellular signalling complexes are assembled for different members of the TNFR superfamily, depending on their intracellular domains and sequences []. Activation of TNFRs can therefore induce a range of disparate effects, including cell proliferation, differentiation, survival, or apoptotic cell death, depending upon the receptor involved []. TNFRs are widely distributed and play important roles in many crucial biological processes, such as lymphoid and neuronal development, innate and adaptive immunity, and maintenance of cellular homeostasis []. Drugs that manipulate their signalling have potential roles in the prevention and treatment of many diseases, such as viral infections, coronary heart disease, transplant rejection, and immune disease []. TNF receptor 12 (also known as TWEAK receptor, and fibroblast growth factor-inducible-14 (Fn14)) has been implicated in endothelial cell growth and migration []. The receptor may also play a role in cell-matrix interactions [].; PDB: 2KN0_A 2RPJ_A 2KMZ_A 2EQP_A.
Probab=91.42 E-value=0.067 Score=38.00 Aligned_cols=25 Identities=32% Similarity=0.576 Sum_probs=0.0
Q ss_pred HHHHhheeeeEEEeeeccccceeeccCCc
Q psy4622 21 LLLSGLICLIVYRHYLHRINANLNFDNPV 49 (84)
Q Consensus 21 l~l~~~~~~l~wR~~~~rn~~SmNFDNPV 49 (84)
+.+..+.++++||++|||. .|..|+
T Consensus 90 lVl~llsg~lv~rrcrrr~----~~ttPI 114 (129)
T PF12191_consen 90 LVLALLSGFLVWRRCRRRE----KFTTPI 114 (129)
T ss_dssp -----------------------------
T ss_pred HHHHHHHHHHHHhhhhccc----cCCCcc
Confidence 3344556899999998664 455565
No 5
>PF07095 IgaA: Intracellular growth attenuator protein IgaA; InterPro: IPR010771 This family consists of several bacterial intracellular growth attenuator (IgaA) proteins. IgaA is involved in negative control of bacterial proliferation within fibroblasts. IgaA is homologous to the Escherichia coli YrfF and Proteus mirabilis UmoB proteins. Whereas the biological function of YrfF is currently unknown, UmoB has been shown elsewhere to act as a positive regulator of FlhDC, the master regulator of flagella and swarming. FlhDC has been shown to repress cell division during P. mirabilis swarming, suggesting that UmoB could repress cell division via FlhDC. This biological function, if maintained in Salmonella enterica, could sustain a putative negative control of cell division and growth exerted by IgaA in intracellular bacteria [].; GO: 0009276 Gram-negative-bacterium-type cell wall, 0016021 integral to membrane
Probab=90.84 E-value=0.053 Score=47.13 Aligned_cols=46 Identities=22% Similarity=0.189 Sum_probs=30.9
Q ss_pred hhHHHHHHHHHHHhheeeeEEEeeecccc-ceeeccCCccccccccce
Q psy4622 12 VVILVCTIILLLSGLICLIVYRHYLHRIN-ANLNFDNPVYRKTTEDQF 58 (84)
Q Consensus 12 ~vil~l~~~l~l~~~~~~l~wR~~~~rn~-~SmNFDNPVYrKTTEd~~ 58 (84)
.+++.+ ++++++++|.|+++|..++... +..-|..|-|||-|+||-
T Consensus 5 ~iilai-l~~~li~~~~~~~~r~~r~~~~~~~~~~~~~~~RKLt~eEr 51 (705)
T PF07095_consen 5 VIILAI-LLACLIIAGSFLWFRMRRRPPLRKLPPFAKPTHRKLTAEER 51 (705)
T ss_pred HHHHHH-HHHHHHHHHHHHHHHhccCCCccccCCCCCCCCCCCCHHHH
Confidence 344555 6677777777666655544344 455999999999996543
No 6
>PF14610 DUF4448: Protein of unknown function (DUF4448)
Probab=90.39 E-value=0.12 Score=36.93 Aligned_cols=26 Identities=15% Similarity=0.317 Sum_probs=15.4
Q ss_pred CceeehhHHHHHHHHHHHhheeeeEE
Q psy4622 7 GMVAFVVILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 7 g~~al~vil~l~~~l~l~~~~~~l~w 32 (84)
+..++.|.||++++++++++.++++|
T Consensus 156 ~~~~laI~lPvvv~~~~~~~~~~~~~ 181 (189)
T PF14610_consen 156 GKYALAIALPVVVVVLALIMYGFFFW 181 (189)
T ss_pred cceeEEEEccHHHHHHHHHHHhhhee
Confidence 45688888999444444444444444
No 7
>PF14828 Amnionless: Amnionless
Probab=90.03 E-value=0.48 Score=38.77 Aligned_cols=46 Identities=20% Similarity=0.223 Sum_probs=29.8
Q ss_pred eeehhHHHHHHHHHHHhheeeeEE----------Eeeecccc-------ceeeccCCccccccc
Q psy4622 9 VAFVVILVCTIILLLSGLICLIVY----------RHYLHRIN-------ANLNFDNPVYRKTTE 55 (84)
Q Consensus 9 ~al~vil~l~~~l~l~~~~~~l~w----------R~~~~rn~-------~SmNFDNPVYrKTTE 55 (84)
++..+++.+ +++++++...|+.+ .+|+++.. -.-+|+||++-...|
T Consensus 340 v~~~vl~~L-llv~ll~~~~ll~~~~~~~~l~~~~~w~r~~~~~~~~~~~~~~f~nprFD~~~~ 402 (437)
T PF14828_consen 340 VVGIVLGCL-LLVALLFGVILLYRLPRNPSLPRIPRWRRDERRVRWEHRFPQGFDNPRFDNPGE 402 (437)
T ss_pred eeeehHHHH-HHHHHHHHhheEEeccccccccccceeeecccccccccccCCCCCCCccCCCcc
Confidence 455555555 55666665555444 36765553 567999999998883
No 8
>PF02064 MAS20: MAS20 protein import receptor; InterPro: IPR002056 Virtually all mitochondrial precursors are imported via the same mechanism []: precursors first bind to receptors on the mitochondrial surface, then insert into the translocation channel in the outer membrane. Many outer-membrane proteins participate in the early stages of import, four of which (MAS20, MAS22, MAS37 and MAS70) are components of the receptor. MAS20, which forms a subcomplex with MAS22, seems to interact with most or all mitochondrial precursors, suggesting that the protein binds directly to mitochondrial targeting sequences. The MAS37 and MAS70 components also form a subcomplex, the two subcomplexes possibly binding via their trans- membrane (TM) regions - the TM region of MAS70 promotes oligomerisation of attatched protein domains and shares sequence similarity with the TM region of MAS20 []. MAS20 is also known as TOM20.; GO: 0006605 protein targeting, 0006886 intracellular protein transport, 0005742 mitochondrial outer membrane translocase complex; PDB: 3AX3_A 3AWR_B 2V1S_A 3AX5_C 3AX2_C 1OM2_A 2V1T_B.
Probab=87.91 E-value=0.16 Score=35.29 Aligned_cols=30 Identities=20% Similarity=0.377 Sum_probs=0.0
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCccccccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE 55 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTE 55 (84)
+.++.+++.||++|-.++||| +|-|||--.
T Consensus 3 ag~a~~~~lgYciYFD~KRR~-------dP~frkkL~ 32 (121)
T PF02064_consen 3 AGVAAAAFLGYCIYFDYKRRS-------DPDFRKKLR 32 (121)
T ss_dssp -------------------------------------
T ss_pred HHHHHHHHHHHHhhccccccc-------ChHHHHHHH
Confidence 456777889999999998776 599998763
No 9
>PF05337 CSF-1: Macrophage colony stimulating factor-1 (CSF-1); InterPro: IPR008001 Colony stimulating factor 1 (CSF-1) is a homodimeric polypeptide growth factor whose primary function is to regulate the survival, proliferation, differentiation, and function of cells of the mononuclear phagocytic lineage. This lineage includes mononuclear phagocytic precursors, blood monocytes, tissue macrophages, osteoclasts, and microglia of the brain, all of which possess cell surface receptors for CSF-1. The protein has also been linked with male fertility [] and mutations in the Csf-1 gene have been found to cause osteopetrosis and failure of tooth eruption [].; GO: 0005125 cytokine activity, 0008083 growth factor activity, 0016021 integral to membrane; PDB: 3EJJ_A.
Probab=87.79 E-value=0.16 Score=40.12 Aligned_cols=42 Identities=24% Similarity=0.386 Sum_probs=0.0
Q ss_pred eeehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCCccc
Q psy4622 9 VAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYR 51 (84)
Q Consensus 9 ~al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYr 51 (84)
.++.++.|- +++.|+++||.++||+.++.--.+=.-|+|+-+
T Consensus 226 ~vf~lLVPS-iILVLLaVGGLLfYr~rrRs~~e~q~~d~~~~~ 267 (285)
T PF05337_consen 226 FVFYLLVPS-IILVLLAVGGLLFYRRRRRSHREPQTVDSPMEQ 267 (285)
T ss_dssp -------------------------------------------
T ss_pred ccccccccc-hhhhhhhccceeeecccccccccccccCCcccC
Confidence 345556666 788899999999998776544455566666644
No 10
>KOG1215|consensus
Probab=87.49 E-value=0.3 Score=41.78 Aligned_cols=52 Identities=29% Similarity=0.235 Sum_probs=37.6
Q ss_pred HHHHhheeeeEEEeeeccccceeeccCCccccccc--cceee--ccCCCCCccccCC
Q psy4622 21 LLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE--DQFSL--EKNPYTPARIYPT 73 (84)
Q Consensus 21 l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTE--d~~~i--~r~~~~~~~~YP~ 73 (84)
........+..+|+|++++.++++|+||+|+|+++ +...+ ..+. ..++.||.
T Consensus 798 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~ 853 (877)
T KOG1215|consen 798 TSFIEVSGLDGERKCRRRPEGVVDFDNPVPPRTTGVEPEKSLLFWTNW-EPGPKIPR 853 (877)
T ss_pred ccEEEEEEEeeecccccccccccccCCCCCCcceeeccccceeccCCc-cccceeee
Confidence 44456678889999999999999999999999994 33332 2332 24566664
No 11
>PF15102 TMEM154: TMEM154 protein family
Probab=85.68 E-value=0.55 Score=33.92 Aligned_cols=29 Identities=21% Similarity=0.435 Sum_probs=14.6
Q ss_pred eehhHHHHHHH--HHHHhheeeeEEEeeecc
Q psy4622 10 AFVVILVCTII--LLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 10 al~vil~l~~~--l~l~~~~~~l~wR~~~~r 38 (84)
.+.|++|++++ +.|.++..++++|+||.|
T Consensus 58 iLmIlIP~VLLvlLLl~vV~lv~~~kRkr~K 88 (146)
T PF15102_consen 58 ILMILIPLVLLVLLLLSVVCLVIYYKRKRTK 88 (146)
T ss_pred EEEEeHHHHHHHHHHHHHHHheeEEeecccC
Confidence 56666674232 233334445555666644
No 12
>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=84.37 E-value=0.85 Score=34.83 Aligned_cols=20 Identities=25% Similarity=0.188 Sum_probs=15.5
Q ss_pred HHHHHHhheeeeEEEeeecc
Q psy4622 19 IILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~r 38 (84)
++|.++++++|+++|+..++
T Consensus 282 a~lvlivLiaYli~Rrr~~~ 301 (306)
T PF01299_consen 282 AGLVLIVLIAYLIGRRRSRA 301 (306)
T ss_pred HHHHHHHHHhheeEeccccc
Confidence 55777788899999987654
No 13
>TIGR00985 3a0801s04tom mitochondrial import receptor subunit translocase of outer membrane 20 kDa subunit.
Probab=82.55 E-value=0.32 Score=34.93 Aligned_cols=29 Identities=21% Similarity=0.388 Sum_probs=24.0
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCcccccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTT 54 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTT 54 (84)
+.++.+++.||++|-.++||| +|-|||.-
T Consensus 13 ag~a~~~flgYciYFD~KRR~-------dPdFRkkL 41 (148)
T TIGR00985 13 AGIAAAAFLGYAIYFDYKRRN-------DPDFRKKL 41 (148)
T ss_pred HHHHHHHHHHHHHhhhhhhcc-------CHHHHHHH
Confidence 566778889999999998776 59999877
No 14
>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=82.13 E-value=0.18 Score=35.17 Aligned_cols=30 Identities=13% Similarity=0.019 Sum_probs=18.5
Q ss_pred CceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 7 GMVAFVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 7 g~~al~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
+.++++++..++.++++.+++.|+++|+.+
T Consensus 64 ~~i~~Ii~gv~aGvIg~Illi~y~irR~~K 93 (122)
T PF01102_consen 64 PAIIGIIFGVMAGVIGIILLISYCIRRLRK 93 (122)
T ss_dssp TCHHHHHHHHHHHHHHHHHHHHHHHHHHS-
T ss_pred cceeehhHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455666666664556666677777766554
No 15
>PF08114 PMP1_2: ATPase proteolipid family; InterPro: IPR012589 This family consists of small proteolipids associated with the plasma membrane H+ ATPase. Two proteolipids (PMP1 and PMP2) are associated with the ATPase and both genes are similarly expressed in the wild-type strain of yeast. No modification of the level of transcription of one PMP gene is detected in a strain deleted of the other. Though both proteolipids show similarity with other small proteolipids associated with other cation -transporting ATPases, their functions remain unclear [].
Probab=82.10 E-value=0.18 Score=29.82 Aligned_cols=34 Identities=24% Similarity=0.538 Sum_probs=19.4
Q ss_pred CCcCCCCceeehhHHHHHHHHHHHhheeeeEEEeeecc
Q psy4622 1 MTTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 1 ~~~~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~~r 38 (84)
|.+-+.|++...++.-+ +.+ ++.+.++||+|.-|
T Consensus 3 ~s~lp~GVIlVF~lVgl-v~i---~iva~~iYRKw~aR 36 (43)
T PF08114_consen 3 MSTLPGGVILVFCLVGL-VGI---GIVALFIYRKWQAR 36 (43)
T ss_pred cccCCCCeeeehHHHHH-HHH---HHHHHHHHHHHHHH
Confidence 34556666655555444 333 44455678999754
No 16
>PF15102 TMEM154: TMEM154 protein family
Probab=80.95 E-value=2.2 Score=30.86 Aligned_cols=11 Identities=27% Similarity=0.446 Sum_probs=6.1
Q ss_pred CCcchhhhhcc
Q psy4622 72 PTSISEEVRCL 82 (84)
Q Consensus 72 P~~~~ee~~~~ 82 (84)
|+.++=|..+|
T Consensus 120 psvmeiEmeel 130 (146)
T PF15102_consen 120 PSVMEIEMEEL 130 (146)
T ss_pred cchhhhhHHHH
Confidence 56665555544
No 17
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=70.68 E-value=4 Score=26.97 Aligned_cols=22 Identities=23% Similarity=0.333 Sum_probs=11.3
Q ss_pred CCCceeehhHHHHHHHHHHHhh
Q psy4622 5 FSGMVAFVVILVCTIILLLSGL 26 (84)
Q Consensus 5 ~sg~~al~vil~l~~~l~l~~~ 26 (84)
..|.++.++|..+.++.+|+++
T Consensus 64 s~gaiagi~vg~~~~v~~lv~~ 85 (96)
T PTZ00382 64 STGAIAGISVAVVAVVGGLVGF 85 (96)
T ss_pred ccccEEEEEeehhhHHHHHHHH
Confidence 3466777776544133344434
No 18
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=66.25 E-value=14 Score=24.42 Aligned_cols=29 Identities=17% Similarity=0.187 Sum_probs=13.0
Q ss_pred ehhHHHHHHHHHHHhheeeeEEEeeeccc
Q psy4622 11 FVVILVCTIILLLSGLICLIVYRHYLHRI 39 (84)
Q Consensus 11 l~vil~l~~~l~l~~~~~~l~wR~~~~rn 39 (84)
+++++.+.+++.++.++-||+--+-|+++
T Consensus 65 li~lls~v~IlVily~IyYFVILRer~~~ 93 (101)
T PF06024_consen 65 LISLLSFVCILVILYAIYYFVILRERQKS 93 (101)
T ss_pred HHHHHHHHHHHHHHhhheEEEEEeccccc
Confidence 33333333445555555555554433343
No 19
>KOG1226|consensus
Probab=63.92 E-value=2.5 Score=37.46 Aligned_cols=27 Identities=22% Similarity=0.426 Sum_probs=14.8
Q ss_pred CCceeehhHHHHHHHHHHHhheeeeEE
Q psy4622 6 SGMVAFVVILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~~~l~w 32 (84)
.+..++.|++-++++|.|+.++..++|
T Consensus 709 ~~~~~~~i~lgvv~~ivligl~llliw 735 (783)
T KOG1226|consen 709 PGPNILAIVLGVVAGIVLIGLALLLIW 735 (783)
T ss_pred CCCcEeeehHHHHHHHHHHHHHHHHHH
Confidence 445555555433255556666666666
No 20
>PF14283 DUF4366: Domain of unknown function (DUF4366)
Probab=63.05 E-value=10 Score=28.62 Aligned_cols=20 Identities=15% Similarity=0.331 Sum_probs=10.7
Q ss_pred HHHHHHhheeeeEEEeeecc
Q psy4622 19 IILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~r 38 (84)
+++++++.|+|++++-.+.|
T Consensus 167 llv~l~gGGa~yYfK~~K~K 186 (218)
T PF14283_consen 167 LLVALIGGGAYYYFKFYKPK 186 (218)
T ss_pred HHHHHhhcceEEEEEEeccc
Confidence 44555555666555555433
No 21
>PF15330 SIT: SHP2-interacting transmembrane adaptor protein, SIT
Probab=61.77 E-value=1.6 Score=29.58 Aligned_cols=9 Identities=22% Similarity=0.401 Sum_probs=4.3
Q ss_pred eeeEEEeee
Q psy4622 28 CLIVYRHYL 36 (84)
Q Consensus 28 ~~l~wR~~~ 36 (84)
..+.||..+
T Consensus 18 sl~~wr~~~ 26 (107)
T PF15330_consen 18 SLLAWRMKQ 26 (107)
T ss_pred HHHHHHHHh
Confidence 345565443
No 22
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=60.34 E-value=3.7 Score=25.64 Aligned_cols=21 Identities=19% Similarity=0.384 Sum_probs=14.1
Q ss_pred eehhHHHHHHHHHHHhheeee
Q psy4622 10 AFVVILVCTIILLLSGLICLI 30 (84)
Q Consensus 10 al~vil~l~~~l~l~~~~~~l 30 (84)
.+.+.+|++++++++++++|+
T Consensus 3 ~l~~Lipvsi~l~~v~l~~fl 23 (58)
T COG3197 3 ILYILIPVSILLGAVGLGAFL 23 (58)
T ss_pred eeeeHHHHHHHHHHHHHHHHH
Confidence 456777886666666666655
No 23
>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=60.31 E-value=2.9 Score=34.31 Aligned_cols=22 Identities=27% Similarity=0.197 Sum_probs=0.0
Q ss_pred Eeeeccccc-eeeccCCcccccc
Q psy4622 33 RHYLHRINA-NLNFDNPVYRKTT 54 (84)
Q Consensus 33 R~~~~rn~~-SmNFDNPVYrKTT 54 (84)
|++++|... ..|=.+|+|..--
T Consensus 378 ~rrrR~~~~~~~~~~~~~YtsLP 400 (439)
T PF02480_consen 378 CRRRRRQRDKILNPFSPVYTSLP 400 (439)
T ss_dssp -----------------------
T ss_pred ehhcccccccccCcCCCccccCC
Confidence 444444444 6788889995443
No 24
>PF02009 Rifin_STEVOR: Rifin/stevor family; InterPro: IPR002858 Malaria is still a major cause of mortality in many areas of the world. Plasmodium falciparum causes the most severe human form of the disease and is responsible for most fatalities. Severe cases of malaria can occur when the parasite invades and then proliferates within red blood cell erythrocytes. The parasite produces many variant antigenic proteins, encoded by multigene families, which are present on the surface of the infected erythrocyte and play important roles in virulence. A crucial survival mechanism for the malaria parasite is its ability to evade the immune response by switching these variant surface antigens. The high virulence of P. falciparum relative to other malarial parasites is in large part due to the fact that in this organism many of these surface antigens mediate the binding of infected erythrocytes to the vascular endothelium (cytoadherence) and non-infected erythrocytes (rosetting). This can lead to the accumulation of infected cells in the vasculature of a variety of organs, blocking the blood flow and reducing the oxygen supply. Clinical symptoms of severe infection can include fever, progressive anaemia, multi-organ dysfunction and coma. For more information see []. Several multicopy gene families have been described in Plasmodium falciparum, including the stevor family of subtelomeric open reading frames and the rif interspersed repetitive elements. Both families contain three predicted transmembrane segments. It has been proposed that stevor and rif are members of a larger superfamily that code for variant surface antigens [].
Probab=58.94 E-value=1.5 Score=34.53 Aligned_cols=18 Identities=22% Similarity=0.357 Sum_probs=14.4
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
+++.|+.++.||+||..|
T Consensus 266 liIVLIMvIIYLILRYRR 283 (299)
T PF02009_consen 266 LIIVLIMVIIYLILRYRR 283 (299)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 677888888999998554
No 25
>PF14257 DUF4349: Domain of unknown function (DUF4349)
Probab=57.96 E-value=5.4 Score=29.54 Aligned_cols=21 Identities=29% Similarity=0.412 Sum_probs=9.3
Q ss_pred hHHHHHHHHHHHhheeeeEEE
Q psy4622 13 VILVCTIILLLSGLICLIVYR 33 (84)
Q Consensus 13 vil~l~~~l~l~~~~~~l~wR 33 (84)
.++|+.+++.+++++.+++||
T Consensus 242 ~l~p~~~~~~~~~~~~~~~~R 262 (262)
T PF14257_consen 242 GLLPWLPLILIIGLLVRFVRR 262 (262)
T ss_pred HHHHHHHHHHHHHHHHheEeC
Confidence 345552333444444455554
No 26
>PF11084 DUF2621: Protein of unknown function (DUF2621); InterPro: IPR020203 This entry represents a group of uncharacterised proteins.
Probab=55.55 E-value=1.3 Score=31.98 Aligned_cols=18 Identities=17% Similarity=0.516 Sum_probs=16.1
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
+++++.++|||+++|+..
T Consensus 16 vli~l~~IGGfFMFRKFL 33 (141)
T PF11084_consen 16 VLIGLMAIGGFFMFRKFL 33 (141)
T ss_pred HHHHHHHHhHHHHHHHHH
Confidence 778999999999999874
No 27
>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=55.44 E-value=4.2 Score=24.54 Aligned_cols=21 Identities=14% Similarity=0.434 Sum_probs=13.8
Q ss_pred eehhHHHHHHHHHHHhheeee
Q psy4622 10 AFVVILVCTIILLLSGLICLI 30 (84)
Q Consensus 10 al~vil~l~~~l~l~~~~~~l 30 (84)
++++.+|+++++++.++.+++
T Consensus 3 il~~LIpiSl~l~~~~l~~f~ 23 (51)
T TIGR00847 3 ILTILIPISLLLGGVGLVAFL 23 (51)
T ss_pred hHHHHHHHHHHHHHHHHHHHH
Confidence 456677887667666666554
No 28
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=55.10 E-value=7 Score=28.14 Aligned_cols=29 Identities=17% Similarity=0.203 Sum_probs=15.5
Q ss_pred eeehhHHHHHHHHHHHhheeeeEEEeeecc
Q psy4622 9 VAFVVILVCTIILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 9 ~al~vil~l~~~l~l~~~~~~l~wR~~~~r 38 (84)
+|+.+|+.+ +++.++....+.+||.+|+|
T Consensus 101 ia~~~il~i-l~~i~is~~~~~~yr~~r~~ 129 (139)
T PHA03099 101 IPSPGIVLV-LVGIIITCCLLSVYRFTRRT 129 (139)
T ss_pred hhhhHHHHH-HHHHHHHHHHHhhheeeecc
Confidence 444445444 44444444556667766644
No 29
>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=54.69 E-value=5.3 Score=23.37 Aligned_cols=21 Identities=19% Similarity=0.415 Sum_probs=14.0
Q ss_pred eehhHHHHHHHHHHHhheeee
Q psy4622 10 AFVVILVCTIILLLSGLICLI 30 (84)
Q Consensus 10 al~vil~l~~~l~l~~~~~~l 30 (84)
.+++.+|++++++++++++++
T Consensus 2 ~l~~lip~sl~l~~~~l~~f~ 22 (45)
T PF03597_consen 2 ILYILIPVSLILGLIALAAFL 22 (45)
T ss_pred chhHHHHHHHHHHHHHHHHHH
Confidence 356677887777776666655
No 30
>KOG4056|consensus
Probab=54.03 E-value=6.1 Score=28.60 Aligned_cols=30 Identities=17% Similarity=0.198 Sum_probs=24.2
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCccccccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTE 55 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTE 55 (84)
..++.+++.||.+|-.+++||- |-|+|+-+
T Consensus 15 agiag~af~gYciYFd~KRrsd-------P~fk~~lr 44 (143)
T KOG4056|consen 15 AGIAGLAFIGYCIYFDKKRRSD-------PDFKKKLR 44 (143)
T ss_pred HHHHHHHHHHHHhhcccccccC-------hhHHHHHH
Confidence 5678888999999988887764 77888775
No 31
>PF06809 NPDC1: Neural proliferation differentiation control-1 protein (NPDC1); InterPro: IPR009635 This family consists of several neural proliferation differentiation control-1 (NPDC1) proteins. NPDC1 plays a role in the control of neural cell proliferation and differentiation. It has been suggested that NPDC1 may be involved in the development of several secretion glands. This family also contains the C-terminal region of the Caenorhabditis elegans protein CAB-1 (Q93249 from SWISSPROT) which is known to interact with AEX-3 [].; GO: 0016021 integral to membrane
Probab=53.70 E-value=21 Score=29.11 Aligned_cols=18 Identities=11% Similarity=-0.247 Sum_probs=13.6
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
++++-+++++|+|||.|+
T Consensus 209 aG~aAliva~~cW~Rlqr 226 (341)
T PF06809_consen 209 AGAAALIVAGYCWYRLQR 226 (341)
T ss_pred HHHHHHHHhhheEEEecc
Confidence 556666778888998875
No 32
>PRK15324 type III secretion system lipoprotein PrgK; Provisional
Probab=51.86 E-value=3.5 Score=31.62 Aligned_cols=26 Identities=15% Similarity=0.229 Sum_probs=19.3
Q ss_pred HHhheeeeEEEeeeccccceeeccCC
Q psy4622 23 LSGLICLIVYRHYLHRINANLNFDNP 48 (84)
Q Consensus 23 l~~~~~~l~wR~~~~rn~~SmNFDNP 48 (84)
+++..++++|++|..|+-..|||+-+
T Consensus 221 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (252)
T PRK15324 221 MSAGFGVWYYKNHYARNKKGITADDK 246 (252)
T ss_pred HHHHHHHHHHHhhhhhhhhccccccc
Confidence 33555677788888888888898765
No 33
>COG3117 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=51.22 E-value=8.6 Score=28.80 Aligned_cols=35 Identities=17% Similarity=0.134 Sum_probs=26.1
Q ss_pred HHHHHHHHHhheeeeEEEeeeccccceeeccCCccc
Q psy4622 16 VCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYR 51 (84)
Q Consensus 16 ~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYr 51 (84)
+| ++++.+|..++++|-.-.....-.-|=|+|-|-
T Consensus 9 ~I-Lll~a~~~~~w~~~~~~~~~~~v~~~~d~p~Y~ 43 (188)
T COG3117 9 LI-LLLAALALSGWLLGLEQDEIEQVRPNPDEPAYT 43 (188)
T ss_pred HH-HHHHHHHHHHHhhhcccccccccccCCCCCcee
Confidence 55 677788888888886665556667788888874
No 34
>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=49.17 E-value=5.6 Score=31.29 Aligned_cols=16 Identities=50% Similarity=0.928 Sum_probs=0.0
Q ss_pred HHHHHHhheeeeEEEe
Q psy4622 19 IILLLSGLICLIVYRH 34 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~ 34 (84)
+++.++++++++.||+
T Consensus 157 ~iLLIA~iIa~icyrr 172 (290)
T PF05454_consen 157 AILLIAGIIACICYRR 172 (290)
T ss_dssp ----------------
T ss_pred HHHHHHHHHHHHhhhh
Confidence 3445567777888873
No 35
>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=49.08 E-value=13 Score=19.20 Aligned_cols=15 Identities=40% Similarity=0.490 Sum_probs=7.6
Q ss_pred HHHHhheeeeEEEee
Q psy4622 21 LLLSGLICLIVYRHY 35 (84)
Q Consensus 21 l~l~~~~~~l~wR~~ 35 (84)
+++++.++++.+|+.
T Consensus 18 ~~l~~~~~~~~~~rk 32 (34)
T TIGR01167 18 LLLLGLGGLLLRKRK 32 (34)
T ss_pred HHHHHHHHHHheecc
Confidence 344555555555543
No 36
>PF11118 DUF2627: Protein of unknown function (DUF2627); InterPro: IPR020138 This entry represents uncharacterised membrane proteins with no known function.
Probab=48.95 E-value=12 Score=24.54 Aligned_cols=22 Identities=14% Similarity=0.076 Sum_probs=15.9
Q ss_pred HHHHHhheeeeEEEeeeccccce
Q psy4622 20 ILLLSGLICLIVYRHYLHRINAN 42 (84)
Q Consensus 20 ~l~l~~~~~~l~wR~~~~rn~~S 42 (84)
++++..++|++.+|..+ ||--+
T Consensus 51 ~~G~~Fi~GfI~~RDRK-rnkV~ 72 (77)
T PF11118_consen 51 AIGVGFIAGFILHRDRK-RNKVQ 72 (77)
T ss_pred HHHHHHHHhHhheeecc-ccccc
Confidence 45666788999999986 55444
No 37
>PF04639 Baculo_E56: Baculoviral E56 protein, specific to ODV envelope; InterPro: IPR006733 This family represents the E56 protein, which is localized to the occlusion derived virus (ODV) envelope, but not to the budded virus (BV) envelope []. Signals necessary for transport and/or retention into this structure are believed to be found within the C-terminal portion of ODV-E56.; GO: 0019031 viral envelope
Probab=48.89 E-value=17 Score=29.16 Aligned_cols=26 Identities=23% Similarity=0.414 Sum_probs=18.3
Q ss_pred hhHHHHHHHHHHHhheeeeEEEeeecc
Q psy4622 12 VVILVCTIILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 12 ~vil~l~~~l~l~~~~~~l~wR~~~~r 38 (84)
.+|+.| ..+.++++++|+++|....|
T Consensus 279 piil~I-G~vl~i~~Ig~~ifK~~~~~ 304 (305)
T PF04639_consen 279 PIILII-GGVLLIVFIGYFIFKRLMNR 304 (305)
T ss_pred HHHHHH-HHHHHHHHhhheeeEeeccC
Confidence 334444 66788889999999877533
No 38
>PF03302 VSP: Giardia variant-specific surface protein; InterPro: IPR005127 During infection, the intestinal protozoan parasite Giardia lamblia virus undergoes continuous antigenic variation which is determined by diversification of the parasite's major surface antigen, named VSP (variant surface protein).
Probab=48.74 E-value=8.1 Score=31.00 Aligned_cols=25 Identities=16% Similarity=0.263 Sum_probs=14.6
Q ss_pred CCCceeehhHHHHHHHHHHHhheeeeEE
Q psy4622 5 FSGMVAFVVILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 5 ~sg~~al~vil~l~~~l~l~~~~~~l~w 32 (84)
.+|.+|.|.|..|+++.+|| |||.|
T Consensus 365 stgaIaGIsvavvvvVgglv---GfLcW 389 (397)
T PF03302_consen 365 STGAIAGISVAVVVVVGGLV---GFLCW 389 (397)
T ss_pred cccceeeeeehhHHHHHHHH---HHHhh
Confidence 35788888886663444443 44444
No 39
>COG5294 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=48.26 E-value=27 Score=24.38 Aligned_cols=37 Identities=16% Similarity=0.022 Sum_probs=17.3
Q ss_pred HHhheeeeEEEeeeccccceeeccCCcccccccccee
Q psy4622 23 LSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFS 59 (84)
Q Consensus 23 l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTEd~~~ 59 (84)
+.+.++.++|+|--.-.+|..==.-=.|-|..|+..+
T Consensus 13 ~~ii~a~~~~~~~~~d~fnpyvk~~~~y~k~~~~t~~ 49 (113)
T COG5294 13 LIIIGALFIFYNINYDRFNPYVKITDSYAKVEEDTQD 49 (113)
T ss_pred HHHHhhheEEEecccCCCCceEEEeccceeccccccc
Confidence 3366777778765433322211111145555555444
No 40
>COG3115 ZipA Cell division protein [Cell division and chromosome partitioning]
Probab=45.40 E-value=12 Score=30.22 Aligned_cols=34 Identities=12% Similarity=0.150 Sum_probs=22.9
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCcccccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTT 54 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTT 54 (84)
.+|+++++..--+|++. |--.|+.+|-|..|.+.
T Consensus 12 G~IAIiaLLvhGlWtsR--kE~s~~F~~~p~~r~~s 45 (324)
T COG3115 12 GAIAIIALLVHGLWTSR--KERSSYFRDRPLKRMKS 45 (324)
T ss_pred HHHHHHHHHHhhhhhcc--hhhccccccCccchhhh
Confidence 34555555555568765 45568899999988766
No 41
>PF10883 DUF2681: Protein of unknown function (DUF2681); InterPro: IPR020274 This entry contains membrane proteins with no known function.
Probab=44.38 E-value=2.2 Score=28.34 Aligned_cols=22 Identities=0% Similarity=0.079 Sum_probs=16.5
Q ss_pred HHHHHHhheeeeEEEeeecccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRIN 40 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~ 40 (84)
++..++|+++|++|+-|+.+.-
T Consensus 10 ~~~v~~~i~~y~~~k~~ka~~~ 31 (87)
T PF10883_consen 10 VGAVVALILAYLWWKVKKAKKQ 31 (87)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4567778889999988776544
No 42
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=43.95 E-value=13 Score=28.32 Aligned_cols=34 Identities=9% Similarity=0.050 Sum_probs=16.0
Q ss_pred CcCCCCceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 2 TTRFSGMVAFVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 2 ~~~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
...++-....+++..+ +++.++.+++|++|+.+.
T Consensus 2 ~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~ 35 (346)
T PRK10476 2 ESTPKKSPRKKLPALA-IVALAIVALVFVIWRTDS 35 (346)
T ss_pred CCCCCCCCcccchhHH-HHHHHHHHHHHHheccCc
Confidence 3344444444444333 334444455566666554
No 43
>PF14654 Epiglycanin_C: Mucin, catalytic, TM and cytoplasmic tail region
Probab=43.83 E-value=16 Score=25.26 Aligned_cols=45 Identities=31% Similarity=0.356 Sum_probs=25.3
Q ss_pred cCCCCceeehhHHHHHHH-----HHHHhheeeeEEEeee-ccccceeeccCCcccc
Q psy4622 3 TRFSGMVAFVVILVCTII-----LLLSGLICLIVYRHYL-HRINANLNFDNPVYRK 52 (84)
Q Consensus 3 ~~~sg~~al~vil~l~~~-----l~l~~~~~~l~wR~~~-~rn~~SmNFDNPVYrK 52 (84)
.+++|..-.|-|+.|+++ ++|.+...|++ |+.. +|| -||.-+|+-
T Consensus 9 ~KPsGsL~PWeIfLItLasVvvavGl~aGLfFcv-R~~lslrn----~~~ta~Y~P 59 (106)
T PF14654_consen 9 VKPSGSLKPWEIFLITLASVVVAVGLFAGLFFCV-RNSLSLRN----TFDTAVYRP 59 (106)
T ss_pred cccCCCccchHHHHHHHHHHHHHHHHHHHHHHHh-hhcccccc----ccccceEcc
Confidence 357777777777666432 33333334444 5542 333 478888884
No 44
>PF14316 DUF4381: Domain of unknown function (DUF4381)
Probab=43.41 E-value=3.6 Score=28.25 Aligned_cols=26 Identities=31% Similarity=0.538 Sum_probs=17.0
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCcccccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYRKTT 54 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTT 54 (84)
+++++++.+.+..||+|+ || -|||.-
T Consensus 29 lll~~~~~~~~~~~r~~~-~~---------~yrr~A 54 (146)
T PF14316_consen 29 LLLLLLILLLWRLWRRWR-RN---------RYRREA 54 (146)
T ss_pred HHHHHHHHHHHHHHHHHH-cc---------HHHHHH
Confidence 455666666677777776 33 588766
No 45
>PF06365 CD34_antigen: CD34/Podocalyxin family; InterPro: IPR013836 This family consists of several mammalian CD34 antigen proteins. The CD34 antigen is a human leukocyte membrane protein expressed specifically by lymphohematopoietic progenitor cells. CD34 is a phosphoprotein. Activation of protein kinase C (PKC) has been found to enhance CD34 phosphorylation [, ]. This family contains several eukaryotic podocalyxin proteins. Podocalyxin is a major membrane protein of the glomerular epithelium and is thought to be involved in maintenance of the architecture of the foot processes and filtration slits characteristic of this unique epithelium by virtue of its high negative charge. Podocalyxin functions as an anti-adhesin that maintains an open filtration pathway between neighbouring foot processes in the glomerular epithelium by charge repulsion [].
Probab=43.25 E-value=12 Score=28.12 Aligned_cols=17 Identities=6% Similarity=-0.105 Sum_probs=11.7
Q ss_pred HHHHHHhheeeeEEEee
Q psy4622 19 IILLLSGLICLIVYRHY 35 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~ 35 (84)
++++++..++|+.|.+.
T Consensus 112 lLla~~~~~~Y~~~~Rr 128 (202)
T PF06365_consen 112 LLLAILLGAGYCCHQRR 128 (202)
T ss_pred HHHHHHHHHHHHhhhhc
Confidence 56677777778888433
No 46
>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=41.57 E-value=2.4 Score=32.25 Aligned_cols=25 Identities=20% Similarity=0.214 Sum_probs=18.4
Q ss_pred HHHHHHhheeeeEEEeeecccccee
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANL 43 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~Sm 43 (84)
++..+++++++|-||.|+.+....+
T Consensus 26 i~gviLg~~~lfGW~ywq~~q~~q~ 50 (207)
T COG2976 26 IVGVILGLGGLFGWRYWQSHQVEQA 50 (207)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455667788888999998877643
No 47
>PRK12785 fliL flagellar basal body-associated protein FliL; Reviewed
Probab=41.47 E-value=43 Score=23.74 Aligned_cols=10 Identities=10% Similarity=0.019 Sum_probs=6.1
Q ss_pred hheeeeEEEe
Q psy4622 25 GLICLIVYRH 34 (84)
Q Consensus 25 ~~~~~l~wR~ 34 (84)
+.++|++|..
T Consensus 40 g~g~~f~~~~ 49 (166)
T PRK12785 40 GGGGFFFFFS 49 (166)
T ss_pred chheEEEEEe
Confidence 3466777754
No 48
>PF11821 DUF3341: Protein of unknown function (DUF3341); InterPro: IPR021776 This family of proteins are functionally uncharacterised. This family is found in bacteria. Proteins in this family are about 170 amino acids in length.
Probab=41.29 E-value=13 Score=27.12 Aligned_cols=40 Identities=23% Similarity=0.426 Sum_probs=26.0
Q ss_pred HHHHhheeeeEEEeeeccccceeeccCCccccccccceeecc
Q psy4622 21 LLLSGLICLIVYRHYLHRINANLNFDNPVYRKTTEDQFSLEK 62 (84)
Q Consensus 21 l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTEd~~~i~r 62 (84)
.++.++++++ +.+.-.+-.+. -|+.|-++|+|+|.|-|+-
T Consensus 106 aa~~~~~g~l-~~~~Lp~~~~p-~~~~~~f~r~tdD~F~l~i 145 (173)
T PF11821_consen 106 AALGTVLGML-ILNGLPRLYHP-LFNDPRFERATDDRFFLAI 145 (173)
T ss_pred HHHHHHHHHH-HHcCCCCCCCC-CCCCcccceecCCeEEEEE
Confidence 3444444555 44444444444 6888999999999997753
No 49
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=41.17 E-value=10 Score=24.21 Aligned_cols=16 Identities=19% Similarity=0.424 Sum_probs=12.2
Q ss_pred HHHHHHhheeeeEEEe
Q psy4622 19 IILLLSGLICLIVYRH 34 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~ 34 (84)
.++.++|..+|++||+
T Consensus 76 ~~~~f~~~v~yI~~rR 91 (92)
T PF03908_consen 76 AFLFFLLVVLYILWRR 91 (92)
T ss_pred HHHHHHHHHHHHhhhc
Confidence 4566777788999876
No 50
>PF07889 DUF1664: Protein of unknown function (DUF1664); InterPro: IPR012458 The members of this family are hypothetical plant proteins of unknown function. The region featured in this family is approximately 100 amino acids long.
Probab=40.98 E-value=26 Score=24.46 Aligned_cols=11 Identities=0% Similarity=0.008 Sum_probs=8.5
Q ss_pred heeeeEEEeee
Q psy4622 26 LICLIVYRHYL 36 (84)
Q Consensus 26 ~~~~l~wR~~~ 36 (84)
.=+|++||-|.
T Consensus 19 GY~Y~wwKGws 29 (126)
T PF07889_consen 19 GYGYMWWKGWS 29 (126)
T ss_pred HheeeeecCCc
Confidence 45688999985
No 51
>PF15050 SCIMP: SCIMP protein
Probab=40.46 E-value=4 Score=29.15 Aligned_cols=45 Identities=31% Similarity=0.508 Sum_probs=25.6
Q ss_pred ehhHHHHHHHHHH--HhheeeeEEEeeeccccceeeccCCcccccccc
Q psy4622 11 FVVILVCTIILLL--SGLICLIVYRHYLHRINANLNFDNPVYRKTTED 56 (84)
Q Consensus 11 l~vil~l~~~l~l--~~~~~~l~wR~~~~rn~~SmNFDNPVYrKTTEd 56 (84)
+||||.+++++.. ++++.|++.| |++|..+--...-|.=+|-.+|
T Consensus 8 FWiiLAVaII~vS~~lglIlyCvcR-~~lRqGkkweiakp~k~~~rde 54 (133)
T PF15050_consen 8 FWIILAVAIILVSVVLGLILYCVCR-WQLRQGKKWEIAKPLKQKQRDE 54 (133)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHH-HHHHccccceeccchhhhcccH
Confidence 5666655322222 2333444454 5567777777888887777643
No 52
>PF08725 Integrin_b_cyt: Integrin beta cytoplasmic domain; InterPro: IPR014836 Integrins are the major metazoan receptors for cell adhesion to extracellular matrix proteins and, in vertebrates, also play important roles in certain cell-cell adhesions, make transmembrane connections to the cytoskeleton and activate many intracellular signalling pathways [, ]. The integrin receptors are composed of alpha and beta subunit heterodimers. Each subunit crosses the membrane once, with most of the polypeptide residing in the extracellular space, and has two short cytoplasmic domains. Some members of this family have EGF repeats at the C terminus and also have a vWA domain inserted within the integrin domain at the N terminus. Most integrins recognise relatively short peptide motifs, and in general require an acidic amino acid to be present. Ligand specificity depends upon both the alpha and beta subunits []. There are at least 18 types of alpha and 8 types of beta subunits recognised in humans []. Each alpha subunit tends to associate only with one type of beta subunit, but there are exceptions to this rule []. Each association of alpha and beta subunits has its own binding specificity and signalling properties. Many integrins require activation on the cell surface before they can bind ligands. Integrins frequently intercommunicate, and binding at one integrin receptor activate or inhibit another. The structure of unliganded alphaV beta3 showed the molecule to be folded, with the head bent over towards the C termini of the legs which would normally be inserted into the membrane []. The head comprises a beta propeller domain at the end terminus of the alphaV subunit and an I/A domain inserted into a loop on the top of the hybrid domain in the beta subunit. The I/A domain consists of a Rossman fold with a core of beta parallel sheets surrounded by amphipathic alpha helices. This entry represents the cytoplasmic domain of integrin beta subunits. ; GO: 0004872 receptor activity, 0005488 binding, 0007155 cell adhesion, 0007160 cell-matrix adhesion, 0007229 integrin-mediated signaling pathway, 0008305 integrin complex; PDB: 3G9W_C 2JF1_T 2BRQ_D 1MK9_E 1KUZ_B 2LJF_A 1MK7_C 2RN0_A 1M8O_B 2LJE_A ....
Probab=39.47 E-value=12 Score=21.94 Aligned_cols=10 Identities=40% Similarity=0.813 Sum_probs=8.1
Q ss_pred ccCCcccccc
Q psy4622 45 FDNPVYRKTT 54 (84)
Q Consensus 45 FDNPVYrKTT 54 (84)
=+||.|+..|
T Consensus 27 ~eNPlY~~at 36 (47)
T PF08725_consen 27 GENPLYKSAT 36 (47)
T ss_dssp TTSTTEEEEE
T ss_pred CCCCcccCCc
Confidence 4799999866
No 53
>TIGR03503 conserved hypothetical protein TIGR03503. This set of conserved hypothetical protein has a phylogenetic range that closely matches that of TIGR03501, a putative C-terminal protein targeting signal.
Probab=39.17 E-value=29 Score=28.38 Aligned_cols=18 Identities=33% Similarity=0.569 Sum_probs=13.5
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
+++.+++++++++||+++
T Consensus 356 ~v~lllg~~~~~~~rk~k 373 (374)
T TIGR03503 356 VVILLLGGIGFFVWRKKK 373 (374)
T ss_pred hhhhhhheeeEEEEEEee
Confidence 456677888888898874
No 54
>PF10661 EssA: WXG100 protein secretion system (Wss), protein EssA; InterPro: IPR018920 The Wss (WXG100 protein secretion system) in Staphylococcus aureus seems to be encoded by a locus of eight ORFs, called ess (eSAT-6 secretion system) []. This locus encodes, amongst several other proteins, EssA, a protein predicted to possess one transmembrane domain. Due to its predicted membrane location and its absolute requirement for WXG100 protein secretion, it has been speculated that EssA could form a secretion apparatus in conjunction with YukC and YukAB. Proteins homologous to EssA, YukC, EsaA and YukD were absent from mycobacteria []. Members of this family are associated with type VII secretion of WXG100 family targets in the Firmicutes, but not in the Actinobacteria. This highly divergent protein family consists largely of a central region of highly polar low-complexity sequence containing occasional LF motifs in weak repeats about 17 residues in length, flanked by hydrophobic N- and C-terminal regions.
Probab=39.04 E-value=6 Score=28.01 Aligned_cols=24 Identities=25% Similarity=0.102 Sum_probs=14.7
Q ss_pred ehhHHHHHHHHHHHhheeeeEEEe
Q psy4622 11 FVVILVCTIILLLSGLICLIVYRH 34 (84)
Q Consensus 11 l~vil~l~~~l~l~~~~~~l~wR~ 34 (84)
.++++.|...++++|+|.|.+-|+
T Consensus 119 ~~i~~~i~g~ll~i~~giy~~~r~ 142 (145)
T PF10661_consen 119 PTILLSIGGILLAICGGIYVVLRK 142 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344444434566777888877665
No 55
>PRK01741 cell division protein ZipA; Provisional
Probab=37.01 E-value=8.9 Score=31.00 Aligned_cols=20 Identities=20% Similarity=0.240 Sum_probs=13.6
Q ss_pred HHHHHHhheeeeEEEeeecc
Q psy4622 19 IILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~r 38 (84)
.+|+|++++++-+|-|.|-|
T Consensus 11 g~lal~~Lv~hgiWsnRrEK 30 (332)
T PRK01741 11 GILALVALVAHGIWSNRREK 30 (332)
T ss_pred HHHHHHHHHHhhhhhhhhHH
Confidence 56777777777788665543
No 56
>PF03918 CcmH: Cytochrome C biogenesis protein; InterPro: IPR005616 Members of this family include NrfF, CcmH, CycL, Ccl2.; PDB: 2KW0_A 2HL7_A.
Probab=36.97 E-value=12 Score=26.47 Aligned_cols=33 Identities=21% Similarity=0.362 Sum_probs=0.0
Q ss_pred CCceeehhHHHHHHHHHHHhheeeeEEEeeeccc
Q psy4622 6 SGMVAFVVILVCTIILLLSGLICLIVYRHYLHRI 39 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~~~l~wR~~~~rn 39 (84)
+|...+.-++|+ +++++.+++.+...|+|+++.
T Consensus 98 ~~~~~~lW~~P~-~~l~~g~~~~~~~~rr~~~~~ 130 (148)
T PF03918_consen 98 KGFTWLLWLGPF-LLLLLGGALLFRRLRRWRRRA 130 (148)
T ss_dssp ----------------------------------
T ss_pred CccHHHHHHHHH-HHHHHHHHHHHHHHHhcccCC
Confidence 344444445687 656655555566667776443
No 57
>PF13703 PepSY_TM_2: PepSY-associated TM helix
Probab=35.67 E-value=13 Score=23.33 Aligned_cols=32 Identities=16% Similarity=0.040 Sum_probs=16.4
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPVYR 51 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYr 51 (84)
+++.++..|.++.|++++ |...+.....+..+
T Consensus 26 ~~l~~~isGl~l~~p~~~-~~~~~~r~~~~~~~ 57 (88)
T PF13703_consen 26 LLLLLLISGLYLWWPRRW-RWFFSLRPKRSKSK 57 (88)
T ss_pred HHHHHHHHHHHHhhHHhc-CcccccccCCCCcc
Confidence 344445556666665443 44446566554333
No 58
>PF04901 RAMP: Receptor activity modifying family ; InterPro: IPR006985 The calcitonin-receptor-like receptor can function as either a calcitonin-gene-related peptide or an adrenomedullin receptor. The receptors function is modified by receptor activity modifying protein or RAMP. RAMPs are single-transmembrane-domain proteins [].; GO: 0008565 protein transporter activity, 0006886 intracellular protein transport, 0008277 regulation of G-protein coupled receptor protein signaling pathway, 0016021 integral to membrane; PDB: 2YX8_A 3N7R_C 3N7P_D 3N7S_C 2XVT_A 3AQF_A 3AQE_B.
Probab=35.53 E-value=13 Score=25.56 Aligned_cols=30 Identities=20% Similarity=0.388 Sum_probs=0.5
Q ss_pred CCCCceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 4 RFSGMVAFVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 4 ~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
++.+..+..|++|+ +++.+ ..+.++||-.+
T Consensus 80 PP~~iL~~~I~~Pi-~lt~~--m~~LVVw~sK~ 109 (113)
T PF04901_consen 80 PPDSILCPLIIVPI-LLTLL--MTALVVWRSKR 109 (113)
T ss_dssp -S-------------------------------
T ss_pred CCcceeeHHHHHHH-HHHHH--HHHheeeeccC
Confidence 45666677777887 33322 36678887653
No 59
>PF05423 Mycobact_memb: Mycobacterium membrane protein; InterPro: IPR008693 This family contains several membrane proteins from Mycobacterium species [].
Probab=35.40 E-value=31 Score=24.26 Aligned_cols=19 Identities=16% Similarity=0.079 Sum_probs=15.3
Q ss_pred HHHHHHHHHhheeeeEEEee
Q psy4622 16 VCTIILLLSGLICLIVYRHY 35 (84)
Q Consensus 16 ~l~~~l~l~~~~~~l~wR~~ 35 (84)
|| ++++.++++++.++|=.
T Consensus 8 ~l-v~v~v~~~~g~~V~rl~ 26 (140)
T PF05423_consen 8 PL-VIVAVVAVGGFAVARLR 26 (140)
T ss_pred HH-HHHhheeeeEEEEEEEe
Confidence 66 67888889999999764
No 60
>PHA02681 ORF089 virion membrane protein; Provisional
Probab=35.27 E-value=8.6 Score=25.93 Aligned_cols=18 Identities=22% Similarity=0.523 Sum_probs=15.6
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
++++++|...|.+||++.
T Consensus 11 V~V~IVclliya~YRR~~ 28 (92)
T PHA02681 11 IVISIVCYIVIMMYRRSC 28 (92)
T ss_pred HHHHHHHHHHHHHHHhcc
Confidence 678888999999999985
No 61
>PF10694 DUF2500: Protein of unknown function (DUF2500); InterPro: IPR019635 This entry represents a group of proteins that is largely confined to the Gammaproteobacteria. The function is not known. ; PDB: 3RD4_D 2L0C_A 3Q6C_N.
Probab=34.67 E-value=13 Score=24.58 Aligned_cols=23 Identities=17% Similarity=0.572 Sum_probs=0.0
Q ss_pred HHHHHHhheeeeEE---Eeeeccccce
Q psy4622 19 IILLLSGLICLIVY---RHYLHRINAN 42 (84)
Q Consensus 19 ~~l~l~~~~~~l~w---R~~~~rn~~S 42 (84)
+++++++++.+.++ ++|. +|-++
T Consensus 7 ~~~iii~~~~~~~~~~~~~~~-~n~~a 32 (110)
T PF10694_consen 7 VFIIIIGIIIFVFIRQIRQWA-KNNNA 32 (110)
T ss_dssp ---------------------------
T ss_pred hhhhhhHHHHHHHHHHHHHHH-hcCCC
Confidence 33444444445555 5553 55444
No 62
>PF05808 Podoplanin: Podoplanin; InterPro: IPR008783 This family consists of several mammalian podoplanin-like proteins which are thought to control specifically the unique shape of podocytes [].; GO: 0016021 integral to membrane; PDB: 3IET_X.
Probab=34.53 E-value=13 Score=27.31 Aligned_cols=30 Identities=20% Similarity=0.258 Sum_probs=0.0
Q ss_pred ceeehhHHHHHHHHHHHhheeeeEEEeeecc
Q psy4622 8 MVAFVVILVCTIILLLSGLICLIVYRHYLHR 38 (84)
Q Consensus 8 ~~al~vil~l~~~l~l~~~~~~l~wR~~~~r 38 (84)
..+.+||..| +.+++++.+.+++-|++.-|
T Consensus 130 tLVGIIVGVL-laIG~igGIIivvvRKmSGR 159 (162)
T PF05808_consen 130 TLVGIIVGVL-LAIGFIGGIIIVVVRKMSGR 159 (162)
T ss_dssp -------------------------------
T ss_pred eeeeehhhHH-HHHHHHhheeeEEeehhccc
Confidence 3445666666 67888888888888887433
No 63
>PF13194 DUF4010: Domain of unknown function (DUF4010)
Probab=33.65 E-value=14 Score=27.42 Aligned_cols=23 Identities=22% Similarity=0.446 Sum_probs=11.8
Q ss_pred eeeeEEEe-eeccccceeeccCCc
Q psy4622 27 ICLIVYRH-YLHRINANLNFDNPV 49 (84)
Q Consensus 27 ~~~l~wR~-~~~rn~~SmNFDNPV 49 (84)
.+++.||+ .+......+.++||-
T Consensus 100 ~a~~~~r~~~~~~~~~~~~~~nP~ 123 (211)
T PF13194_consen 100 AALLLWRRREEPEEDEELKLSNPF 123 (211)
T ss_pred HHHHHHHhccccCCCCCCCCCCCC
Confidence 33444665 333344455667775
No 64
>PF06796 NapE: Periplasmic nitrate reductase protein NapE; InterPro: IPR010649 This family consists of several bacterial periplasmic nitrate reductase NapE proteins. Seven genes, napKEFDABC, encoding the periplasmic nitrate reductase system were cloned from the denitrifying phototrophic bacterium Rhodobacter sphaeroides. NapE is thought to be a transmembrane protein [].
Probab=32.08 E-value=13 Score=22.86 Aligned_cols=19 Identities=21% Similarity=0.385 Sum_probs=13.5
Q ss_pred hHHHHHHHHHHHhheeeeEE
Q psy4622 13 VILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 13 vil~l~~~l~l~~~~~~l~w 32 (84)
+++|+ +.+++++.=|+++|
T Consensus 27 ~l~Pi-L~v~~Vg~YGF~VW 45 (56)
T PF06796_consen 27 VLFPI-LAVAFVGGYGFIVW 45 (56)
T ss_pred HHHHH-HHHHHHHHHHHHHH
Confidence 45677 66777777777777
No 65
>TIGR02205 septum_zipA cell division protein ZipA. This model represents the full length of bacterial cell division protein ZipA. The N-terminal hydrophobic stretch is an uncleaved signal-anchor sequence. This is followed by an unconserved, variable length, low complexity region, and then a conserved C-terminal region of about 140 amino acids (see pfam04354) that interacts with the tubulin-like cell division protein FtsZ.
Probab=32.08 E-value=33 Score=26.89 Aligned_cols=29 Identities=14% Similarity=0.171 Sum_probs=16.6
Q ss_pred HHHHHHhheeeeEEEeeeccccceeeccCCc
Q psy4622 19 IILLLSGLICLIVYRHYLHRINANLNFDNPV 49 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPV 49 (84)
.+|+++|+..--+|++. |..+++.+|-|.
T Consensus 10 GaiaI~aLl~hGlwt~R--ke~s~~f~~~~~ 38 (284)
T TIGR02205 10 GILAIAALLFHGLWTSR--KEKSKYFDKAPL 38 (284)
T ss_pred HHHHHHHHHHccccccc--cccccccccCch
Confidence 44566666666788774 444444555444
No 66
>PF02773 S-AdoMet_synt_C: S-adenosylmethionine synthetase, C-terminal domain; InterPro: IPR022630 The three domains of S-adenosylmethionine synthetase have the same alpha+beta fold. This entry represents the C-terminal domain of S=adenosylmethionine synthetase and is found in association with PF00438 from PFAM and PF02772 from PFAM. S-adenosylmethionine synthetase (MAT, 2.5.1.6 from EC) is the enzyme that catalyzes the formation of S-adenosylmethionine (AdoMet) from methionine and ATP []. AdoMet is an important methyl donor for transmethylation and is also the propylamino donor in polyamine biosynthesis. In bacteria there is a single isoform of AdoMet synthetase (gene metK), there are two in budding yeast (genes SAM1 and SAM2) and in mammals while in plants there is generally a multigene family. The sequence of AdoMet synthetase is highly conserved throughout isozymes and species. The active sites of both the Escherichia coli and rat liver MAT reside between two subunits, with contributions from side chains of residues from both subunits, resulting in a dimer as the minimal catalytic entity. The side chains that contribute to the ligand binding sites are conserved between the two proteins. In the structures of complexes with the E. coli enzyme, the phosphate groups have the same positions in the (PPi plus Pi) complex and the (ADP plus Pi) complex, and are located at the bottom of a deep cavity with the adenosyl group nearer the entrance []; GO: 0004478 methionine adenosyltransferase activity; PDB: 3IML_B 1QM4_B 1O9T_B 1O93_A 1O92_B 1O90_A 1FUG_A 1RG9_D 1XRA_A 1P7L_C ....
Probab=31.31 E-value=18 Score=25.98 Aligned_cols=16 Identities=38% Similarity=0.737 Sum_probs=13.3
Q ss_pred cceeeccCCccccccc
Q psy4622 40 NANLNFDNPVYRKTTE 55 (84)
Q Consensus 40 ~~SmNFDNPVYrKTTE 55 (84)
++.++..+|.|+||..
T Consensus 110 I~~L~L~~PiY~~TA~ 125 (138)
T PF02773_consen 110 IKELDLRRPIYRKTAA 125 (138)
T ss_dssp HHHCTTTSSTHGGGGS
T ss_pred HHHhCcCCchhHhhhC
Confidence 4577889999999983
No 67
>TIGR02878 spore_ypjB sporulation protein YpjB. Members of this protein, YpjB, family are restricted to a subset of endospore-forming bacteria, including Bacillus species but not CLostridium or some others. In Bacillus subtilis, ypjB was found to be part of the sigma-E regulon, where sigma-E is a sporulation sigma factor that regulates expression in the mother cell compartment. Null mutants of ypjB show a sporulation defect. This protein family is not, however, a part of the endospore formation minimal gene set.
Probab=30.80 E-value=20 Score=27.76 Aligned_cols=24 Identities=13% Similarity=0.260 Sum_probs=16.1
Q ss_pred ehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 11 FVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 11 l~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
+|+++. .+..++....|+-||+|+
T Consensus 201 iWvmis--tGg~IvltLTYVGwRKYk 224 (233)
T TIGR02878 201 LWVMIS--TGGIIVATLTYVGWRKYK 224 (233)
T ss_pred HHHHHH--hhHHHHHHHhhhhhhhhh
Confidence 344444 345566677899999996
No 68
>PRK11638 lipopolysaccharide biosynthesis protein WzzE; Provisional
Probab=30.52 E-value=51 Score=26.17 Aligned_cols=31 Identities=26% Similarity=0.194 Sum_probs=18.3
Q ss_pred cCCCCceeehhHHHHHHHHHHHhheeeeEEEee
Q psy4622 3 TRFSGMVAFVVILVCTIILLLSGLICLIVYRHY 35 (84)
Q Consensus 3 ~~~sg~~al~vil~l~~~l~l~~~~~~l~wR~~ 35 (84)
.+|+...++++|+-. ++.++++.+..|+ |+.
T Consensus 310 ~rD~Pkr~lIlil~~-llG~~lg~~~vL~-r~~ 340 (342)
T PRK11638 310 KRDSPRRAFLMIMWG-AVGALVGAGVALT-RRR 340 (342)
T ss_pred ccCCCchhHHHHHHH-HHHHHHHheeeEe-ecC
Confidence 356677788777765 5455555544444 553
No 69
>PF09307 MHC2-interact: CLIP, MHC2 interacting; InterPro: IPR015386 This domain is found in MHC class II-associated invariant chain (Ii), and in class II invariant chain-associated peptide (CLIP), and is required for association with class II major histocompatibility complex (MHC II) in the MHC II processing pathway []. Ii plays a critical role in the assembly of the MHC, as well as in MHC II antigen processing by stabilising peptide-free class II alpha/beta heterodimers in a complex soon after their synthesis and directing transport of the complex from the endoplasmic reticulum to compartments where peptide loading of class II takes place []. In antigen-presenting cells (APCs), loading of MHC II molecules with peptides is regulated by Ii, which blocks MHC II antigen-binding sites in pre-endosomal compartments []. Several factors modulate the surface expression of MHC II molecules via post-Golgi mechanisms, including CLIP. The Invariant chain contains a single transmembrane domain. Ii first assembles into a trimer and then associates with three class II alpha/beta MHC heterodimers. Although the membrane-proximal region of the Ii luminal domain is structurally disordered, the C-terminal segment of the luminal domain is largely alpha-helical and contains a major interaction site for the Ii trimer []. More information about these proteins can be found at Protein of the Month: MHC [].; GO: 0042289 MHC class II protein binding, 0006886 intracellular protein transport, 0006955 immune response, 0019882 antigen processing and presentation, 0016020 membrane; PDB: 1A6A_C 3QXD_F 3QXA_F 3PDO_C 1MUJ_C 3PGD_F 3PGC_F.
Probab=30.33 E-value=17 Score=25.23 Aligned_cols=27 Identities=19% Similarity=0.396 Sum_probs=0.0
Q ss_pred eeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 9 VAFVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 9 ~al~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
++...||.. ++|+-.++-+|++|.+..
T Consensus 34 vagltvLa~-LLiAGQa~TaYfv~~Qk~ 60 (114)
T PF09307_consen 34 VAGLTVLAC-LLIAGQAVTAYFVFQQKG 60 (114)
T ss_dssp ----------------------------
T ss_pred HHHHHHHHH-HHHHhHHHHHHHHHHhHh
Confidence 334445555 678888999999996653
No 70
>PRK02565 photosystem II reaction center protein J; Provisional
Probab=30.33 E-value=69 Score=18.55 Aligned_cols=28 Identities=11% Similarity=0.170 Sum_probs=19.3
Q ss_pred CCceeehhHHHHHHHHHHHhheeeeEEEe
Q psy4622 6 SGMVAFVVILVCTIILLLSGLICLIVYRH 34 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~~~l~wR~ 34 (84)
.|.+-+|.|.-+ ..++.+.+.+.+.|--
T Consensus 4 ~GriPLWlV~tv-~G~~vi~~vgiFfyGs 31 (39)
T PRK02565 4 EGRIPLWLVATV-AGMGVIFVVGLFFYGS 31 (39)
T ss_pred CCccceeehhhh-hHHHHHhheeeEEeec
Confidence 377888888777 5566666666666643
No 71
>PHA02902 putative IMV membrane protein; Provisional
Probab=29.66 E-value=9.6 Score=24.56 Aligned_cols=18 Identities=22% Similarity=0.584 Sum_probs=14.5
Q ss_pred HHHHHHhheeeeEEEeee
Q psy4622 19 IILLLSGLICLIVYRHYL 36 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~ 36 (84)
++++.+|...|.+||+++
T Consensus 11 v~v~Ivclliya~YrR~k 28 (70)
T PHA02902 11 VIVIIFCLLIYAAYKRYK 28 (70)
T ss_pred HHHHHHHHHHHHHHHHhc
Confidence 457778888999999883
No 72
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=28.64 E-value=57 Score=23.80 Aligned_cols=12 Identities=17% Similarity=0.219 Sum_probs=6.2
Q ss_pred cccceeeccCCc
Q psy4622 38 RINANLNFDNPV 49 (84)
Q Consensus 38 rn~~SmNFDNPV 49 (84)
|+.+-||=|.-|
T Consensus 78 kktdfidSdGkv 89 (154)
T PF04478_consen 78 KKTDFIDSDGKV 89 (154)
T ss_pred ccCccccCCCcE
Confidence 334555555554
No 73
>smart00135 LY Low-density lipoprotein-receptor YWTD domain. Type "B" repeats in low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. Also present in a variety of molecules similar to gp300/megalin.
Probab=28.15 E-value=15 Score=18.78 Aligned_cols=27 Identities=11% Similarity=0.105 Sum_probs=20.2
Q ss_pred HHHHhheeeeEEEeeeccccceeeccC
Q psy4622 21 LLLSGLICLIVYRHYLHRINANLNFDN 47 (84)
Q Consensus 21 l~l~~~~~~l~wR~~~~rn~~SmNFDN 47 (84)
+++......++|-.+....+.+.++|+
T Consensus 14 la~d~~~~~lYw~D~~~~~I~~~~~~g 40 (43)
T smart00135 14 LAVDWIEGRLYWTDWGLDVIEVANLDG 40 (43)
T ss_pred EEEeecCCEEEEEeCCCCEEEEEeCCC
Confidence 344456678999999887888888775
No 74
>PTZ00208 65 kDa invariant surface glycoprotein; Provisional
Probab=27.94 E-value=34 Score=28.75 Aligned_cols=29 Identities=21% Similarity=0.437 Sum_probs=17.0
Q ss_pred CCceeehhHHHHHHHHHHHhheeeeEEEee
Q psy4622 6 SGMVAFVVILVCTIILLLSGLICLIVYRHY 35 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~~~l~wR~~ 35 (84)
+.++.+-+++|. ++|++.+..+|++-|+.
T Consensus 385 ~~~i~~avl~p~-~il~~~~~~~~~~v~rr 413 (436)
T PTZ00208 385 TAMIILAVLVPA-IILAIIAVAFFIMVKRR 413 (436)
T ss_pred hHHHHHHHHHHH-HHHHHHHHHhheeeeec
Confidence 344556666777 66665555555555544
No 75
>COG1580 FliL Flagellar basal body-associated protein [Cell motility and secretion]
Probab=27.65 E-value=36 Score=24.51 Aligned_cols=23 Identities=17% Similarity=0.327 Sum_probs=11.9
Q ss_pred eehhHHHHHHHHHHHhheeeeEE
Q psy4622 10 AFVVILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 10 al~vil~l~~~l~l~~~~~~l~w 32 (84)
.++|++.+.+++.+++.+++++|
T Consensus 17 ~~~I~liv~ivl~~~a~~~~~~~ 39 (159)
T COG1580 17 SLWILLIVLIVLLALAGAGYFFW 39 (159)
T ss_pred eeehHHHHHHHHHHHHHHHHHHh
Confidence 33444333245555666666666
No 76
>PF00058 Ldl_recept_b: Low-density lipoprotein receptor repeat class B; InterPro: IPR000033 The low-density lipoprotein receptor (LDLR) is the major cholesterol-carrying lipoprotein of plasma, acting to regulate cholesterol homeostasis in mammalian cells. The LDL receptor binds LDL and transports it into cells by acidic endocytosis. In order to be internalized, the receptor-ligand complex must first cluster into clathrin-coated pits. Once inside the cell, the LDLR separates from its ligand, which is degraded in the lysosomes, while the receptor returns to the cell surface []. The internal dissociation of the LDLR with its ligand is mediated by proton pumps within the walls of the endosome that lower the pH. The LDLR is a multi-domain protein, containing: The ligand-binding domain contains seven or eight 40-amino acid LDLR class A (cysteine-rich) repeats, each of which contains a coordinated calcium ion and six cysteine residues involved in disulphide bond formation []. Similar domains have been found in other extracellular and membrane proteins []. The second conserved region contains two EGF repeats, followed by six LDLR class B (YWTD) repeats, and another EGF repeat. The LDLR class B repeats each contain a conserved YWTD motif, and is predicted to form a beta-propeller structure []. This region is critical for ligand release and recycling of the receptor []. The third domain is rich in serine and threonine residues and contains clustered O-linked carbohydrate chains. The fourth domain is the hydrophobic transmembrane region. The fifth domain is the cytoplasmic tail that directs the receptor to clathrin-coated pits. LDLR is closely related in structure to several other receptors, including LRP1, LRP1b, megalin/LRP2, VLDL receptor, lipoprotein receptor, MEGF7/LRP4, and LRP8/apolipoprotein E receptor2); these proteins participate in a wide range of physiological processes, including the regulation of lipid metabolism, protection against atherosclerosis, neurodevelopment, and transport of nutrients and vitamins []. This entry represents the LDLR classB (YWTD) repeat, the structure of which has been solved []. The six YWTD repeats together fold into a six-bladed beta-propeller. Each blade of the propeller consists of four antiparallel beta-strands; the innermost strand of each blade is labeled 1 and the outermost strand, 4. The sequence repeats are offset with respect to the blades of the propeller, such that any given 40-residue YWTD repeat spans strands 24 of one propeller blade and strand 1 of the subsequent blade. This offset ensures circularization of the propeller because the last strand of the final sequence repeat acts as an innermost strand 1 of the blade that harbors strands 24 from the first sequence repeat. The repeat is found in a variety of proteins that include, vitellogenin receptor from Drosophila melanogaster, low-density lipoprotein (LDL) receptor [], preproepidermal growth factor, and nidogen (entactin).; PDB: 3S2K_A 3S8Z_A 3S8V_B 4A0P_A 3SOB_B 3S94_B 4DG6_A 3SOV_A 3SOQ_A 1NPE_A ....
Probab=27.41 E-value=47 Score=18.25 Aligned_cols=25 Identities=20% Similarity=0.288 Sum_probs=20.7
Q ss_pred eeEEEeeecc-ccceeeccCCcccccc
Q psy4622 29 LIVYRHYLHR-INANLNFDNPVYRKTT 54 (84)
Q Consensus 29 ~l~wR~~~~r-n~~SmNFDNPVYrKTT 54 (84)
+++|-.+..+ .+.+.++|+=- ||+.
T Consensus 2 ~iYWtD~~~~~~I~~a~~dGs~-~~~v 27 (42)
T PF00058_consen 2 KIYWTDWSQDPSIERANLDGSN-RRTV 27 (42)
T ss_dssp EEEEEETTTTEEEEEEETTSTS-EEEE
T ss_pred EEEEEECCCCcEEEEEECCCCC-eEEE
Confidence 6889999988 89999999877 5554
No 77
>KOG3145|consensus
Probab=25.76 E-value=50 Score=27.14 Aligned_cols=26 Identities=19% Similarity=0.439 Sum_probs=19.6
Q ss_pred HHHHhheeeeEE---------Eeeeccccceeecc
Q psy4622 21 LLLSGLICLIVY---------RHYLHRINANLNFD 46 (84)
Q Consensus 21 l~l~~~~~~l~w---------R~~~~rn~~SmNFD 46 (84)
--.+....+..| -|||||+.-.+|||
T Consensus 124 ~~IvGwvYf~aWSISfYPqii~N~RrKSv~gLnfD 158 (372)
T KOG3145|consen 124 DQIVGWVYFVAWSISFYPQIILNWRRKSVVGLNFD 158 (372)
T ss_pred HhhhheeEEEEEeeeechHHHhhhhhcceeccccc
Confidence 344455555556 79999999999998
No 78
>PF15012 DUF4519: Domain of unknown function (DUF4519)
Probab=25.71 E-value=56 Score=20.20 Aligned_cols=21 Identities=14% Similarity=0.357 Sum_probs=11.2
Q ss_pred ehhHHHHHHHHHHHhheeeeEE
Q psy4622 11 FVVILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 11 l~vil~l~~~l~l~~~~~~l~w 32 (84)
..|++|. +++.+++++.|++.
T Consensus 31 ~tVVlP~-l~~~~~~Ivv~vy~ 51 (56)
T PF15012_consen 31 FTVVLPT-LAAVFLFIVVFVYL 51 (56)
T ss_pred eeEehhH-HHHHHHHHhheeEE
Confidence 4567787 54444444444443
No 79
>PF11857 DUF3377: Domain of unknown function (DUF3377); InterPro: IPR021805 This domain is functionally uncharacterised and found at the C terminus of peptidases belonging to MEROPS peptidase family M10A, membrane-type matrix metallopeptidases (clan MA). ; GO: 0004222 metalloendopeptidase activity
Probab=25.20 E-value=51 Score=21.41 Aligned_cols=22 Identities=23% Similarity=0.317 Sum_probs=11.8
Q ss_pred CCceeehhHHHHHHHHHHHhhe
Q psy4622 6 SGMVAFVVILVCTIILLLSGLI 27 (84)
Q Consensus 6 sg~~al~vil~l~~~l~l~~~~ 27 (84)
++.-+..+++|+.+++++++++
T Consensus 27 ~~~~avaVviPl~L~LCiLvl~ 48 (74)
T PF11857_consen 27 GTVNAVAVVIPLVLLLCILVLI 48 (74)
T ss_pred CceeEEEEeHHHHHHHHHHHHH
Confidence 4455556666774444444443
No 80
>PHA03265 envelope glycoprotein D; Provisional
Probab=24.99 E-value=14 Score=30.68 Aligned_cols=22 Identities=27% Similarity=0.209 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHhheeeeEEEeee
Q psy4622 14 ILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 14 il~l~~~l~l~~~~~~l~wR~~~ 36 (84)
-+-| +.+.++.++.|+.||+.+
T Consensus 355 g~~i-~glv~vg~il~~~~rr~k 376 (402)
T PHA03265 355 GLGI-AGLVLVGVILYVCLRRKK 376 (402)
T ss_pred ccch-hhhhhhhHHHHHHhhhhh
Confidence 3444 667778888899997653
No 81
>TIGR02972 TMAO_torE trimethylamine N-oxide reductase system, TorE protein. Members of this small, apparent transmembrane protein are designated TorE and occur in operons for the trimethylamine N-oxide (TMAO) reductase system. Members are closely related to the NapE protein of the related periplasmic nitrate reductase system. It may be that TorE is an integral membrane subunit of a complex with the reductase TorA.
Probab=24.93 E-value=22 Score=21.30 Aligned_cols=19 Identities=16% Similarity=0.237 Sum_probs=12.9
Q ss_pred hHHHHHHHHHHHhheeeeEE
Q psy4622 13 VILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 13 vil~l~~~l~l~~~~~~l~w 32 (84)
+++|+ +.+++++.=|+++|
T Consensus 19 ~l~Pi-LsV~~Vg~YGF~vW 37 (47)
T TIGR02972 19 VLFPI-LSVAGIGGYGFIIW 37 (47)
T ss_pred HHHHH-HHHHHHHHHHHHHH
Confidence 45677 66777777677776
No 82
>COG4459 NapE Periplasmic nitrate reductase system, NapE component [Energy production and conversion]
Probab=24.70 E-value=20 Score=22.57 Aligned_cols=18 Identities=17% Similarity=0.325 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHhheeeeEE
Q psy4622 14 ILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 14 il~l~~~l~l~~~~~~l~w 32 (84)
+.|+ +.++++..-||++|
T Consensus 31 l~Pi-lsV~~VG~yGFiVW 48 (62)
T COG4459 31 LFPI-LSVAFVGGYGFIVW 48 (62)
T ss_pred HHHH-HHHHHhcchhHHHH
Confidence 4566 66777777777877
No 83
>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.40 E-value=59 Score=25.00 Aligned_cols=23 Identities=17% Similarity=0.299 Sum_probs=17.2
Q ss_pred hHHHHHHHHHHHhheeeeEEEeee
Q psy4622 13 VILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 13 vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
+++-+ .++..+..+||+-|+.|+
T Consensus 29 ~v~gi-ailvVlGtag~~gy~yw~ 51 (221)
T COG4649 29 AVIGI-AILVVLGTAGYVGYTYWQ 51 (221)
T ss_pred HHHHH-HHHHHhccccceeeehhc
Confidence 34444 567777888999999996
No 84
>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=24.35 E-value=26 Score=25.99 Aligned_cols=28 Identities=14% Similarity=0.114 Sum_probs=14.6
Q ss_pred ceeehhHHHHHHHHHHHhheeeeEEEeee
Q psy4622 8 MVAFVVILVCTIILLLSGLICLIVYRHYL 36 (84)
Q Consensus 8 ~~al~vil~l~~~l~l~~~~~~l~wR~~~ 36 (84)
.=+.+.|.-|+++++++++ +||+||-|+
T Consensus 158 FD~~SFiGGIVL~LGv~aI-~ff~~KF~k 185 (186)
T PF05283_consen 158 FDAASFIGGIVLTLGVLAI-IFFLYKFCK 185 (186)
T ss_pred CchhhhhhHHHHHHHHHHH-HHHHhhhcc
Confidence 3344444444244555554 477777664
No 85
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=24.01 E-value=24 Score=26.23 Aligned_cols=11 Identities=27% Similarity=0.528 Sum_probs=7.9
Q ss_pred ccceeeccCCc
Q psy4622 39 INANLNFDNPV 49 (84)
Q Consensus 39 n~~SmNFDNPV 49 (84)
+-.++-|+||-
T Consensus 64 ~eediQfinpy 74 (189)
T PF05568_consen 64 EEEDIQFINPY 74 (189)
T ss_pred hhhcccccCcc
Confidence 34578899984
No 86
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=23.71 E-value=22 Score=24.99 Aligned_cols=30 Identities=17% Similarity=-0.023 Sum_probs=0.0
Q ss_pred HHHHHhheeeeEEE-eeecccc--ceeeccCCc
Q psy4622 20 ILLLSGLICLIVYR-HYLHRIN--ANLNFDNPV 49 (84)
Q Consensus 20 ~l~l~~~~~~l~wR-~~~~rn~--~SmNFDNPV 49 (84)
+|+++.+.+.+.+| +-.=|+. ++++-.-+-
T Consensus 35 ILgiLLliGCWYckRRSGYk~L~~k~~~~gt~~ 67 (118)
T PF14991_consen 35 ILGILLLIGCWYCKRRSGYKTLRDKSLHAGTQS 67 (118)
T ss_dssp ---------------------------------
T ss_pred HHHHHHHHhheeeeecchhhhhhhccccccCch
Confidence 34444444555443 3233333 455554444
No 87
>COG5603 TRS20 Subunit of TRAPP, an ER-Golgi tethering complex [Cell motility and secretion]
Probab=23.43 E-value=31 Score=24.68 Aligned_cols=8 Identities=63% Similarity=1.261 Sum_probs=6.7
Q ss_pred cCCccccc
Q psy4622 46 DNPVYRKT 53 (84)
Q Consensus 46 DNPVYrKT 53 (84)
|||||.+.
T Consensus 12 dnpVYe~e 19 (136)
T COG5603 12 DNPVYERE 19 (136)
T ss_pred CCceeeee
Confidence 89999864
No 88
>KOG3540|consensus
Probab=23.27 E-value=28 Score=30.13 Aligned_cols=28 Identities=18% Similarity=0.247 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhheeeeEEEeeeccccc
Q psy4622 14 ILVCTIILLLSGLICLIVYRHYLHRINA 41 (84)
Q Consensus 14 il~l~~~l~l~~~~~~l~wR~~~~rn~~ 41 (84)
+|..+++++-+|++.+++-|+.+.+.+.
T Consensus 553 llv~~~~i~tvivisl~mlrkr~y~ai~ 580 (615)
T KOG3540|consen 553 LLVSAVFIATVIVISLVMLRKRQYGAIS 580 (615)
T ss_pred HHHHHHHHHHHHHHHHHHHcccccccce
Confidence 3444466778888888888866655554
No 89
>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=22.61 E-value=18 Score=22.75 Aligned_cols=10 Identities=20% Similarity=0.590 Sum_probs=4.5
Q ss_pred eeeeEEEeee
Q psy4622 27 ICLIVYRHYL 36 (84)
Q Consensus 27 ~~~l~wR~~~ 36 (84)
...+.+|+++
T Consensus 19 ~~~~~~rr~~ 28 (75)
T PF14575_consen 19 IVIVCFRRCK 28 (75)
T ss_dssp HHHCCCTT--
T ss_pred eEEEEEeeEc
Confidence 3456666554
No 90
>PF07092 DUF1356: Protein of unknown function (DUF1356); InterPro: IPR009790 This family consists of several hypothetical mammalian proteins of around 250 residues in length. The function of this family is unknown.
Probab=22.61 E-value=1.3e+02 Score=23.34 Aligned_cols=15 Identities=33% Similarity=0.543 Sum_probs=8.9
Q ss_pred cceeeccCCcccccc
Q psy4622 40 NANLNFDNPVYRKTT 54 (84)
Q Consensus 40 ~~SmNFDNPVYrKTT 54 (84)
++.+|..||=|=--+
T Consensus 127 tn~lNIsN~NFy~V~ 141 (238)
T PF07092_consen 127 TNTLNISNPNFYPVT 141 (238)
T ss_pred EEEEEccCCCEEEEE
Confidence 456777777554433
No 91
>PF14055 NVEALA: NVEALA protein
Probab=22.21 E-value=96 Score=18.68 Aligned_cols=26 Identities=15% Similarity=0.221 Sum_probs=13.8
Q ss_pred HHHhheeeeEEEeeecc-ccceeeccC
Q psy4622 22 LLSGLICLIVYRHYLHR-INANLNFDN 47 (84)
Q Consensus 22 ~l~~~~~~l~wR~~~~r-n~~SmNFDN 47 (84)
.++++.+|-+|.....+ +...+-++|
T Consensus 13 v~~~~ag~~~~~~~~~~~~lsdL~L~N 39 (65)
T PF14055_consen 13 VFAAVAGYNVYQSQNKEVNLSDLALAN 39 (65)
T ss_pred HHhhheeeeEEEeccCccccchHHHHh
Confidence 33566777777664322 344444444
No 92
>KOG4550|consensus
Probab=22.20 E-value=24 Score=30.35 Aligned_cols=17 Identities=6% Similarity=0.380 Sum_probs=11.3
Q ss_pred HHHHHHhheeeeEEEee
Q psy4622 19 IILLLSGLICLIVYRHY 35 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~ 35 (84)
+++.++++++++-||-.
T Consensus 571 vC~~il~ii~~Lh~~EK 587 (606)
T KOG4550|consen 571 VCVFILAIIGILHWQEK 587 (606)
T ss_pred HHHHHHHHHhheehhhh
Confidence 44556677788888543
No 93
>TIGR02973 nitrate_rd_NapE periplasmic nitrate reductase, NapE protein. NapE, homologous to TorE (TIGR02972), is a membrane protein of unknown function that is part of the periplasmic nitrate reductase system; it may be part of the enzyme complex. The periplasmic nitrate reductase allows for nitrate respiration in anaerobic conditions.
Probab=21.98 E-value=27 Score=20.45 Aligned_cols=19 Identities=21% Similarity=0.289 Sum_probs=12.8
Q ss_pred hHHHHHHHHHHHhheeeeEE
Q psy4622 13 VILVCTIILLLSGLICLIVY 32 (84)
Q Consensus 13 vil~l~~~l~l~~~~~~l~w 32 (84)
+++|+ +.+++++.=|+++|
T Consensus 14 ~l~Pi-LsV~~V~~YGF~vW 32 (42)
T TIGR02973 14 VIWPV-LSVITVGGYGFAVW 32 (42)
T ss_pred HHHHH-HHHHHHHHHHHHHH
Confidence 45677 66777776677766
No 94
>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=21.93 E-value=44 Score=26.88 Aligned_cols=19 Identities=32% Similarity=0.492 Sum_probs=10.9
Q ss_pred eeEEEeeeccccceeeccCCc
Q psy4622 29 LIVYRHYLHRINANLNFDNPV 49 (84)
Q Consensus 29 ~l~wR~~~~rn~~SmNFDNPV 49 (84)
.++||+.++|...+ =+|||
T Consensus 317 ~~~~~~~~~~~~~~--~~~p~ 335 (361)
T PF12259_consen 317 AWLYRTFRRRQLRS--AQNPV 335 (361)
T ss_pred HhheeehHHHHhhh--ccCCc
Confidence 35666666665555 45564
No 95
>PHA02777 major capsid L1 protein; Provisional
Probab=21.86 E-value=47 Score=28.55 Aligned_cols=12 Identities=17% Similarity=0.451 Sum_probs=9.3
Q ss_pred cceeeccCCccc
Q psy4622 40 NANLNFDNPVYR 51 (84)
Q Consensus 40 ~~SmNFDNPVYr 51 (84)
..-+.||||+|-
T Consensus 310 ~~lv~fdNPafd 321 (555)
T PHA02777 310 AVLFQAENPAFD 321 (555)
T ss_pred ccceeecCCCcC
Confidence 355679999995
No 96
>PF06040 Adeno_E3: Adenovirus E3 protein; InterPro: IPR009266 This family consists of several Adenovirus E3 proteins. The E3 protein does not seem to be essential for virus replication in cultured cells suggesting that the protein may function in virus-host interactions [].
Probab=21.42 E-value=75 Score=22.58 Aligned_cols=9 Identities=0% Similarity=0.290 Sum_probs=5.6
Q ss_pred eeEEEeeec
Q psy4622 29 LIVYRHYLH 37 (84)
Q Consensus 29 ~l~wR~~~~ 37 (84)
..|.|+|++
T Consensus 118 ~cW~k~wG~ 126 (127)
T PF06040_consen 118 ICWFKKWGR 126 (127)
T ss_pred eeeeecccC
Confidence 345588863
No 97
>PF13396 PLDc_N: Phospholipase_D-nuclease N-terminal
Probab=20.93 E-value=1.2e+02 Score=16.61 Aligned_cols=26 Identities=12% Similarity=0.367 Sum_probs=15.6
Q ss_pred CceeehhHHHHHHHHHHHhheeeeEEEe
Q psy4622 7 GMVAFVVILVCTIILLLSGLICLIVYRH 34 (84)
Q Consensus 7 g~~al~vil~l~~~l~l~~~~~~l~wR~ 34 (84)
+...+|+++. +++-.++...|+++++
T Consensus 20 ~~k~~W~~~i--~~~P~iG~i~Yl~~gr 45 (46)
T PF13396_consen 20 SSKILWLIVI--LFFPIIGPILYLIFGR 45 (46)
T ss_pred chhhHHHHHH--HHHHHHHHhheEEEeC
Confidence 3444454433 3566777778888754
No 98
>KOG3653|consensus
Probab=20.68 E-value=29 Score=29.85 Aligned_cols=31 Identities=16% Similarity=0.255 Sum_probs=17.5
Q ss_pred CceeehhHHHHH--HHHHHHhheeeeEEEeeec
Q psy4622 7 GMVAFVVILVCT--IILLLSGLICLIVYRHYLH 37 (84)
Q Consensus 7 g~~al~vil~l~--~~l~l~~~~~~l~wR~~~~ 37 (84)
+....++++|+. .+++++.+.+|++||+.+.
T Consensus 151 ~~~~~~al~~~~~v~~l~~lvi~~~~~~r~~k~ 183 (534)
T KOG3653|consen 151 GEVLIYALIPLLLVSLLAALVILAFLGYRQRKN 183 (534)
T ss_pred CceehhhHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 334445555521 4455556677888877653
No 99
>PHA02898 virion envelope protein; Provisional
Probab=20.51 E-value=14 Score=24.97 Aligned_cols=46 Identities=20% Similarity=0.241 Sum_probs=20.1
Q ss_pred CCCceeehhHHHHHHHHHHHhheeeeEEEeeeccccceeeccCCccccc
Q psy4622 5 FSGMVAFVVILVCTIILLLSGLICLIVYRHYLHRINANLNFDNPVYRKT 53 (84)
Q Consensus 5 ~sg~~al~vil~l~~~l~l~~~~~~l~wR~~~~rn~~SmNFDNPVYrKT 53 (84)
++-..|++++--+...+.++....|=+|+ ++=..++.-||-.|...
T Consensus 41 ~~~wRalSii~FIlgivl~lG~~ifs~y~---r~C~~~~~~e~~ry~ns 86 (92)
T PHA02898 41 DSALRSISIISFILAIILILGIIFFKGYN---MFCGGNTTDEVSRYANS 86 (92)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHh---hhcCCCcccccceecCC
Confidence 33444555553331223333333333443 22233444587777443
No 100
>PRK03598 putative efflux pump membrane fusion protein; Provisional
Probab=20.10 E-value=73 Score=24.01 Aligned_cols=21 Identities=10% Similarity=-0.081 Sum_probs=14.6
Q ss_pred HHHHHHhheeeeEEEeeeccc
Q psy4622 19 IILLLSGLICLIVYRHYLHRI 39 (84)
Q Consensus 19 ~~l~l~~~~~~l~wR~~~~rn 39 (84)
+++.++.++.++++.++.++.
T Consensus 12 ~~~~~~~~~~~~~~~~~~~~~ 32 (331)
T PRK03598 12 VVLAAAVAGGWWWYQSRQDNG 32 (331)
T ss_pred HHHHHHHHHheeEeeecCCcc
Confidence 456666777888887776554
Done!