Query 034421
Match_columns 95
No_of_seqs 102 out of 153
Neff 3.9
Searched_HMMs 46136
Date Fri Mar 29 02:41:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/034421.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/034421hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF00335 Tetraspannin: Tetrasp 92.8 0.061 1.3E-06 36.8 1.4 55 25-79 166-220 (221)
2 PF12273 RCR: Chitin synthesis 91.7 0.097 2.1E-06 36.4 1.4 24 58-81 5-28 (130)
3 PF09889 DUF2116: Uncharacteri 84.1 2.8 6.1E-05 26.7 4.3 30 38-67 22-51 (59)
4 PF05393 Hum_adeno_E3A: Human 73.8 3.7 8.1E-05 28.6 2.7 21 62-82 43-63 (94)
5 PF12191 stn_TNFRSF12A: Tumour 69.4 0.86 1.9E-05 33.4 -1.3 61 25-86 41-110 (129)
6 PF12273 RCR: Chitin synthesis 67.2 5.6 0.00012 27.6 2.5 22 52-73 2-23 (130)
7 PF10164 DUF2367: Uncharacteri 64.7 5 0.00011 28.2 1.8 42 34-81 49-90 (98)
8 PF10721 DUF2514: Protein of u 58.1 12 0.00026 27.6 2.9 24 52-75 1-24 (162)
9 PF04854 DUF624: Protein of un 57.5 31 0.00067 21.3 4.4 29 42-70 46-74 (77)
10 PF06422 PDR_CDR: CDR ABC tran 57.1 13 0.00029 25.1 2.9 25 48-72 45-69 (103)
11 PF00957 Synaptobrevin: Synapt 53.6 21 0.00045 22.9 3.2 10 52-61 63-72 (89)
12 PF11770 GAPT: GRB2-binding ad 51.8 14 0.0003 28.0 2.4 24 54-77 9-32 (158)
13 PF13260 DUF4051: Protein of u 50.6 21 0.00046 22.6 2.7 26 56-81 4-33 (54)
14 PF00957 Synaptobrevin: Synapt 49.9 32 0.0007 22.0 3.7 25 50-74 64-88 (89)
15 PF14991 MLANA: Protein melan- 49.5 5.5 0.00012 28.8 0.0 20 61-80 31-50 (118)
16 PF13061 DUF3923: Protein of u 49.1 17 0.00037 23.4 2.3 26 42-67 30-55 (66)
17 KOG1666 V-SNARE [Intracellular 47.1 28 0.00061 27.6 3.6 24 48-71 194-217 (220)
18 TIGR01478 STEVOR variant surfa 46.6 23 0.00051 29.1 3.2 24 49-72 258-281 (295)
19 PF01708 Gemini_mov: Geminivir 45.8 6.3 0.00014 27.4 -0.2 28 51-78 33-60 (91)
20 PTZ00370 STEVOR; Provisional 45.3 25 0.00055 28.9 3.2 24 49-72 254-277 (296)
21 PF09125 COX2-transmemb: Cytoc 45.2 61 0.0013 19.3 4.0 25 44-68 8-32 (38)
22 PRK10476 multidrug resistance 44.4 16 0.00034 28.6 1.8 25 49-73 7-31 (346)
23 PF11807 DUF3328: Domain of un 43.1 31 0.00067 24.0 3.0 33 49-81 7-39 (217)
24 PF05454 DAG1: Dystroglycan (D 39.5 9.8 0.00021 30.8 0.0 31 51-81 144-174 (290)
25 PF12911 OppC_N: N-terminal TM 38.9 44 0.00095 19.4 2.8 28 44-73 8-35 (56)
26 TIGR02459 CbtB cobalt transpor 36.7 54 0.0012 21.1 3.1 17 59-75 23-39 (60)
27 PRK11653 hypothetical protein; 34.2 45 0.00098 26.2 2.9 30 45-75 9-38 (225)
28 PF07423 DUF1510: Protein of u 34.1 55 0.0012 25.5 3.4 28 51-78 9-36 (217)
29 PF07172 GRP: Glycine rich pro 33.9 52 0.0011 22.3 2.9 16 54-69 4-19 (95)
30 PF13800 Sigma_reg_N: Sigma fa 33.9 62 0.0013 21.1 3.2 24 49-72 11-34 (96)
31 PF11694 DUF3290: Protein of u 33.8 34 0.00075 25.0 2.1 22 48-69 42-63 (149)
32 PF15188 CCDC-167: Coiled-coil 33.6 69 0.0015 21.7 3.4 26 45-70 59-84 (85)
33 PF13937 DUF4212: Domain of un 33.5 49 0.0011 22.0 2.7 28 54-86 50-77 (81)
34 PF15298 AJAP1_PANP_C: AJAP1/P 33.1 28 0.0006 27.3 1.6 30 57-86 106-136 (205)
35 KOG3658 Tumor necrosis factor- 33.0 57 0.0012 30.0 3.7 28 51-80 682-709 (764)
36 TIGR01625 YidE_YbjL_dupl AspT/ 32.3 1E+02 0.0022 22.4 4.4 38 42-79 73-112 (154)
37 PF05915 DUF872: Eukaryotic pr 32.0 75 0.0016 22.3 3.5 22 47-68 36-57 (115)
38 PHA02947 S-S bond formation pa 31.6 26 0.00056 27.6 1.2 21 70-94 192-212 (215)
39 PF15176 LRR19-TM: Leucine-ric 31.5 57 0.0012 23.1 2.8 34 50-83 15-49 (102)
40 PF14857 TMEM151: TMEM151 fami 31.3 48 0.001 28.6 2.8 23 56-78 68-90 (425)
41 PHA02955 hypothetical protein; 31.1 35 0.00075 26.9 1.8 7 88-94 206-212 (213)
42 PF00020 TNFR_c6: TNFR/NGFR cy 31.0 25 0.00054 19.5 0.8 13 32-44 13-25 (39)
43 KOG0810 SNARE protein Syntaxin 30.8 35 0.00077 27.6 1.9 32 41-72 259-290 (297)
44 PF06024 DUF912: Nucleopolyhed 30.6 47 0.001 22.4 2.2 29 50-78 59-87 (101)
45 PF11511 RhodobacterPufX: Intr 30.3 78 0.0017 20.8 3.1 20 55-74 31-50 (67)
46 PF01102 Glycophorin_A: Glycop 29.7 72 0.0016 22.8 3.1 16 57-72 73-88 (122)
47 KOG1747 Protein tyrosine kinas 28.8 30 0.00064 29.0 1.1 15 39-53 272-286 (342)
48 PF05568 ASFV_J13L: African sw 28.7 56 0.0012 25.1 2.6 25 54-78 32-56 (189)
49 PF01299 Lamp: Lysosome-associ 28.6 39 0.00085 26.4 1.8 29 54-82 272-300 (306)
50 PLN02518 pheophorbide a oxygen 28.2 82 0.0018 27.5 3.8 17 36-54 466-482 (539)
51 PF07970 COPIIcoated_ERV: Endo 28.2 36 0.00078 25.7 1.4 20 37-56 12-31 (222)
52 PF14424 Toxin-deaminase: The 27.9 36 0.00079 24.2 1.4 19 36-55 107-125 (133)
53 PRK14750 kdpF potassium-transp 27.8 99 0.0021 17.4 2.8 24 55-80 3-26 (29)
54 smart00208 TNFR Tumor necrosis 27.7 32 0.00069 18.7 0.8 13 32-44 13-25 (39)
55 PF04324 Fer2_BFD: BFD-like [2 27.7 19 0.00042 21.2 -0.1 19 34-52 37-55 (55)
56 PF14914 LRRC37AB_C: LRRC37A/B 27.3 80 0.0017 23.8 3.1 22 63-84 132-153 (154)
57 PF09049 SNN_transmemb: Stanni 27.1 1.3E+02 0.0028 17.3 3.3 12 64-75 22-33 (33)
58 TIGR01732 tiny_TM_bacill conse 26.4 72 0.0016 17.5 2.1 7 62-68 14-20 (26)
59 KOG3882 Tetraspanin family int 26.0 1.6E+02 0.0034 21.6 4.5 46 36-81 184-229 (237)
60 TIGR02484 CitB CitB domain pro 25.8 1.2E+02 0.0027 25.5 4.3 9 32-40 48-56 (372)
61 PF02723 NS3_envE: Non-structu 25.8 56 0.0012 22.1 1.9 8 72-79 41-48 (82)
62 PF10215 Ost4: Oligosaccaryltr 25.6 1.1E+02 0.0024 17.6 2.8 19 54-72 9-27 (35)
63 PRK13872 conjugal transfer pro 24.8 1.7E+02 0.0036 22.1 4.5 23 43-65 32-54 (228)
64 PF11190 DUF2976: Protein of u 24.6 89 0.0019 21.2 2.7 22 49-70 57-78 (87)
65 PF06692 MNSV_P7B: Melon necro 24.4 93 0.002 20.1 2.6 12 33-44 2-13 (61)
66 PF09489 CbtB: Probable cobalt 24.3 1.5E+02 0.0032 18.5 3.5 24 51-74 9-32 (54)
67 PF00974 Rhabdo_glycop: Rhabdo 24.3 25 0.00055 30.0 0.0 11 50-60 449-459 (501)
68 KOG4779 Predicted membrane pro 24.3 2E+02 0.0044 19.5 4.4 46 24-71 31-78 (82)
69 PF01299 Lamp: Lysosome-associ 23.9 1E+02 0.0023 24.1 3.4 29 55-83 270-298 (306)
70 TIGR03647 Na_symport_sm probab 23.6 96 0.0021 20.5 2.7 25 55-84 47-71 (77)
71 PHA02673 ORF109 EEV glycoprote 23.6 1.1E+02 0.0024 23.2 3.3 38 42-79 16-63 (161)
72 PF07672 MFS_Mycoplasma: Mycop 23.4 1.6E+02 0.0034 23.8 4.3 30 43-72 31-60 (267)
73 PF08391 Ly49: Ly49-like prote 23.4 27 0.00058 24.9 0.0 28 51-78 3-31 (119)
74 PF01034 Syndecan: Syndecan do 23.2 32 0.00069 22.5 0.3 10 73-82 30-39 (64)
75 PF03303 WTF: WTF protein; In 23.1 1.5E+02 0.0032 24.0 4.1 27 39-66 158-184 (247)
76 PRK06193 hypothetical protein; 22.4 57 0.0012 24.8 1.6 41 53-94 4-44 (206)
77 PF10658 DUF2484: Protein of u 21.8 1.1E+02 0.0023 20.6 2.6 33 50-82 26-70 (77)
78 KOG0812 SNARE protein SED5/Syn 21.7 94 0.002 25.9 2.8 23 50-72 288-310 (311)
79 PF02932 Neur_chan_memb: Neuro 21.6 1.4E+02 0.003 19.4 3.1 11 48-58 206-216 (237)
80 KOG4517 Uncharacterized conser 21.5 1.3E+02 0.0028 21.8 3.2 42 35-82 68-109 (117)
81 PF13129 DUF3953: Protein of u 21.4 38 0.00081 19.9 0.3 25 45-69 14-38 (42)
82 PF11395 DUF2873: Protein of u 21.2 1.5E+02 0.0033 17.8 2.9 16 56-71 15-30 (43)
83 PF04272 Phospholamban: Phosph 21.1 2.2E+02 0.0047 17.8 3.7 23 48-70 28-50 (52)
84 PF08437 Glyco_transf_8C: Glyc 20.9 47 0.001 20.5 0.7 20 9-30 1-20 (57)
85 PF09777 OSTMP1: Osteopetrosis 20.8 2E+02 0.0044 22.3 4.4 20 55-74 192-211 (237)
86 PF03100 CcmE: CcmE; InterPro 20.7 33 0.00072 24.0 0.0 25 48-72 1-25 (131)
87 PTZ00448 hypothetical protein; 20.5 48 0.001 28.1 0.9 24 34-57 314-343 (373)
88 PF10601 zf-LITAF-like: LITAF- 20.5 19 0.00041 22.6 -1.2 30 36-65 9-38 (73)
89 COG5605 Predicted small integr 20.2 2.4E+02 0.0051 20.2 4.2 23 41-63 60-84 (115)
90 PHA03283 envelope glycoprotein 20.0 1E+02 0.0022 27.4 2.8 32 50-81 397-429 (542)
No 1
>PF00335 Tetraspannin: Tetraspanin family RDS_ROM1 subfamily; InterPro: IPR018499 A number of eukaryotic CD antigens have been shown to be related []. CD9 (also called DRAP-27, MRP-1 or p24) upregulates HB-EGF activity as a receptor for diphtheria toxin as well as its juxtacrine activity. CD9 mAbs modulate cell adhesion and migration and trigger platelet activation that is blocked by mAbs directed to the platelet Fc receptor CD32. In mice, CD9 mAb KMC8.8 has been shown to inhibit the production of myeloid cells in vitro and has a costimulatory activity for T cells. CD9 is a type III membrane protein, with four putative transmembrane domains. CD37 (or gp52-40) is involved in signal transduction and serves as a stable marker for malignancies derived from mature B cells, like B-CLL, HCL, and all types of B-NHL. CD63 transfection reduced melanoma cell motility on fibronectin, collagen and laminin, and reduced the growth and metastasis of melanoma cells in nude mice []. CD63 has been used as a marker for late endosomes and for primary melanomas. These proteins are all type II membrane proteins: they contain an N-terminal transmembrane (TM) domain, which acts both as a signal sequence and a membrane anchor, and 3 additional TM regions (hence the name 'TM4'). The sequences contain a number of conserved cysteine residues. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/). ; GO: 0016021 integral to membrane; PDB: 1IV5_A 1G8Q_A.
Probab=92.76 E-value=0.061 Score=36.76 Aligned_cols=55 Identities=16% Similarity=0.300 Sum_probs=21.8
Q ss_pred eeeCCCCcceecCcchhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhccccc
Q 034421 25 QWGNDQMQLCYNCDSCKAGLLANLKKEWRRVDIILIVTLVALILVYLIGCCAFRN 79 (95)
Q Consensus 25 ~WsNd~~~LCy~CdSCKAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~vGCca~rn 79 (95)
.+..++.......+.|+..+.+.+++.+..++++.++++++.++...++|+-.|+
T Consensus 166 ~~~~~~~~~~~~~~gC~~~l~~~~~~~~~~~~~~~~~~~~l~~~~~~~a~~l~~~ 220 (221)
T PF00335_consen 166 CPDDCSSENSIYTRGCYDKLREYLRSYLKYIGIVSLAILVLQLIGIILACCLCRH 220 (221)
T ss_dssp S-TTCCCCHCCTST-HHHHHHHHHCT-----------------------------
T ss_pred ccccccccccccCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence 5667788899999999999999999999999999999988888888877775554
No 2
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=91.73 E-value=0.097 Score=36.44 Aligned_cols=24 Identities=21% Similarity=0.531 Sum_probs=10.2
Q ss_pred HHHHHHHHHHHHHHHhhccccccc
Q 034421 58 ILIVTLVALILVYLIGCCAFRNDK 81 (95)
Q Consensus 58 ~niv~lv~Li~vy~vGCca~rn~r 81 (95)
+.|++++|||+++++.|-+.|..|
T Consensus 5 ~~iii~~i~l~~~~~~~~~rRR~r 28 (130)
T PF12273_consen 5 FAIIIVAILLFLFLFYCHNRRRRR 28 (130)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhh
Confidence 334444444444444444444433
No 3
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=84.06 E-value=2.8 Score=26.68 Aligned_cols=30 Identities=13% Similarity=0.205 Sum_probs=22.2
Q ss_pred cchhhHHHHHHHhhhhHHHHHHHHHHHHHH
Q 034421 38 DSCKAGLLANLKKEWRRVDIILIVTLVALI 67 (95)
Q Consensus 38 dSCKAGvl~~lk~~Wr~~ai~niv~lv~Li 67 (95)
+.|+.-....-|+.++.-.++-++++++|+
T Consensus 22 ~~C~~~~~k~qk~~~~~~~i~~~~~i~~l~ 51 (59)
T PF09889_consen 22 PKCREEYRKRQKRMRKTQYIFFGIFILFLA 51 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 479999999999999776666666555443
No 4
>PF05393 Hum_adeno_E3A: Human adenovirus early E3A glycoprotein; InterPro: IPR008652 This family consists of several early glycoproteins (E3A), from human adenovirus type 2.; GO: 0016021 integral to membrane
Probab=73.82 E-value=3.7 Score=28.65 Aligned_cols=21 Identities=10% Similarity=0.529 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHhhccccccch
Q 034421 62 TLVALILVYLIGCCAFRNDKT 82 (95)
Q Consensus 62 ~lv~Li~vy~vGCca~rn~r~ 82 (95)
+++.+|+.|++-|-+.|.+||
T Consensus 43 iFil~VilwfvCC~kRkrsRr 63 (94)
T PF05393_consen 43 IFILLVILWFVCCKKRKRSRR 63 (94)
T ss_pred HHHHHHHHHHHHHHHhhhccC
Confidence 346677888888888877776
No 5
>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=69.40 E-value=0.86 Score=33.36 Aligned_cols=61 Identities=28% Similarity=0.413 Sum_probs=19.2
Q ss_pred eeeCCCCcceecCcchhhH--------HHHHHHhhhhHHHHHHHHH-HHHHHHHHHHhhccccccchhhhh
Q 034421 25 QWGNDQMQLCYNCDSCKAG--------LLANLKKEWRRVDIILIVT-LVALILVYLIGCCAFRNDKTEDLF 86 (95)
Q Consensus 25 ~WsNd~~~LCy~CdSCKAG--------vl~~lk~~Wr~~ai~niv~-lv~Li~vy~vGCca~rn~r~~~~~ 86 (95)
.||-|-+ .|-+|.|||+- ..+.--..|+-+.++..-+ -++||++...|--..|.-||++.|
T Consensus 41 sWs~dLd-kCm~CssC~~~P~S~~C~~C~a~p~~p~~l~~pi~~sal~v~lVl~llsg~lv~rrcrrr~~~ 110 (129)
T PF12191_consen 41 SWSADLD-KCMSCSSCPAYPKSPFCQGCPAAPPAPFPLLWPILGSALSVVLVLALLSGFLVWRRCRRREKF 110 (129)
T ss_dssp EEETTTT-EEEECCCHCC-TT-CCCCCHSS-SSS-SSSS--------------------------------
T ss_pred cCccccc-ccccCccCCCCCCCccccCCCCCCCCCcceehhhhhhHHHHHHHHHHHHHHHHHhhhhccccC
Confidence 8999876 99999999952 2222222366555542211 122333333344445555555544
No 6
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=67.23 E-value=5.6 Score=27.57 Aligned_cols=22 Identities=32% Similarity=0.611 Sum_probs=12.7
Q ss_pred hhHHHHHHHHHHHHHHHHHHHh
Q 034421 52 WRRVDIILIVTLVALILVYLIG 73 (95)
Q Consensus 52 Wr~~ai~niv~lv~Li~vy~vG 73 (95)
|-.++||-+++|++|++++.+.
T Consensus 2 W~l~~iii~~i~l~~~~~~~~~ 23 (130)
T PF12273_consen 2 WVLFAIIIVAILLFLFLFYCHN 23 (130)
T ss_pred eeeHHHHHHHHHHHHHHHHHHH
Confidence 5555666666666665555544
No 7
>PF10164 DUF2367: Uncharacterized conserved protein (DUF2367); InterPro: IPR019317 This is a highly conserved set of proteins which contains three pairs of cysteine residues within a length of 42 amino acids and is rich in proline residues towards the N terminus. It includes a membrane protein that has been found to be highly expressed in the mouse brain and consequently, several members have been assigned as brain protein i3 (Bri3). Their function is unknown.
Probab=64.72 E-value=5 Score=28.17 Aligned_cols=42 Identities=19% Similarity=0.551 Sum_probs=25.6
Q ss_pred eecCcchhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q 034421 34 CYNCDSCKAGLLANLKKEWRRVDIILIVTLVALILVYLIGCCAFRNDK 81 (95)
Q Consensus 34 Cy~CdSCKAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~vGCca~rn~r 81 (95)
==.|.+|+.|+|++ +..-..|+..++++=+=|+ -|.+.|..|
T Consensus 49 vggCp~CrvG~le~---~ft~~Gi~~AI~fFPiGil---cc~~~r~~r 90 (98)
T PF10164_consen 49 VGGCPACRVGVLED---SFTCCGILCAIFFFPIGIL---CCLAMRERR 90 (98)
T ss_pred ecCCCCCceeeecc---cccHHHHHHHHHHHhhHHH---HhhhcCccc
Confidence 35799999999975 6666666665544333222 345555543
No 8
>PF10721 DUF2514: Protein of unknown function (DUF2514); InterPro: IPR019659 This protein family is conserved in bacteria and some viruses. The function is not known.
Probab=58.07 E-value=12 Score=27.62 Aligned_cols=24 Identities=25% Similarity=0.595 Sum_probs=19.9
Q ss_pred hhHHHHHHHHHHHHHHHHHHHhhc
Q 034421 52 WRRVDIILIVTLVALILVYLIGCC 75 (95)
Q Consensus 52 Wr~~ai~niv~lv~Li~vy~vGCc 75 (95)
|+.+.++.+++++++..+|+.|=.
T Consensus 1 W~~l~~vllla~~~~~g~y~~G~~ 24 (162)
T PF10721_consen 1 WKQLAIVLLLAAALLWGAYAHGYA 24 (162)
T ss_pred CHHHHHHHHHHHHHHHHHHHhccH
Confidence 888899888888888888887753
No 9
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=57.54 E-value=31 Score=21.33 Aligned_cols=29 Identities=14% Similarity=0.418 Sum_probs=23.2
Q ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHHHHH
Q 034421 42 AGLLANLKKEWRRVDIILIVTLVALILVY 70 (95)
Q Consensus 42 AGvl~~lk~~Wr~~ai~niv~lv~Li~vy 70 (95)
..+.+..|++|++..++.++.+++..+.+
T Consensus 46 ~~f~~~fk~nf~~~~~~~~~~~~~~~il~ 74 (77)
T PF04854_consen 46 RDFWRAFKQNFKQSLLLGLILLLLLAILY 74 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45778889999999998888877776655
No 10
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=57.07 E-value=13 Score=25.05 Aligned_cols=25 Identities=20% Similarity=0.529 Sum_probs=16.4
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 48 LKKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 48 lk~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
....||.+.|+-..+++|+++.++.
T Consensus 45 ~sh~WRN~GIli~f~i~f~~~~~~~ 69 (103)
T PF06422_consen 45 YSHRWRNFGILIAFWIFFIVLTLLA 69 (103)
T ss_pred ccchhhhHHHHHHHHHHHHHHHHHH
Confidence 3568999888776666655554443
No 11
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=53.57 E-value=21 Score=22.89 Aligned_cols=10 Identities=30% Similarity=1.019 Sum_probs=4.1
Q ss_pred hhHHHHHHHH
Q 034421 52 WRRVDIILIV 61 (95)
Q Consensus 52 Wr~~ai~niv 61 (95)
|++..+..++
T Consensus 63 ~~~~k~~~i~ 72 (89)
T PF00957_consen 63 WRNYKLYIII 72 (89)
T ss_dssp HHHHHHHHHH
T ss_pred HHHHHHHHhH
Confidence 4444333333
No 12
>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=51.79 E-value=14 Score=27.99 Aligned_cols=24 Identities=33% Similarity=0.538 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccc
Q 034421 54 RVDIILIVTLVALILVYLIGCCAF 77 (95)
Q Consensus 54 ~~ai~niv~lv~Li~vy~vGCca~ 77 (95)
.++|.-.++|++|+++..+||--.
T Consensus 9 sv~i~igi~Ll~lLl~cgiGcvwh 32 (158)
T PF11770_consen 9 SVAISIGISLLLLLLLCGIGCVWH 32 (158)
T ss_pred hHHHHHHHHHHHHHHHHhcceEEE
Confidence 456667778888999999999555
No 13
>PF13260 DUF4051: Protein of unknown function (DUF4051)
Probab=50.64 E-value=21 Score=22.57 Aligned_cols=26 Identities=35% Similarity=0.639 Sum_probs=17.6
Q ss_pred HHHHHHHHHHHHHHHHHh----hccccccc
Q 034421 56 DIILIVTLVALILVYLIG----CCAFRNDK 81 (95)
Q Consensus 56 ai~niv~lv~Li~vy~vG----Cca~rn~r 81 (95)
+..=||++++++.-|++- |-|||..|
T Consensus 4 awywivli~lv~~gy~~hmkrycrafrqdr 33 (54)
T PF13260_consen 4 AWYWIVLIVLVVVGYFCHMKRYCRAFRQDR 33 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhH
Confidence 444566666666666664 88999866
No 14
>PF00957 Synaptobrevin: Synaptobrevin; InterPro: IPR001388 Synaptobrevin is an intrinsic membrane protein of small synaptic vesicles [], specialised secretory organelles of neurons that actively accumulate neurotransmitters and participate in their calcium-dependent release by exocytosis. Vesicle function is mediated by proteins in their membranes, although the precise nature of the protein-protein interactions underlying this are still uncertain []. Synaptobrevin may play a role in the molecular events underlying neurotransmitter release and vesicle recycling and may be involved in the regulation of membrane flow in the nerve terminal, a process mediated by interaction with low molecular weight GTP-binding proteins []. Synaptic vesicle-associated membrane proteins (VAMPs) from Torpedo californica (Pacific electric ray) and SNC1 from yeast are related to synaptobrevin.; GO: 0016192 vesicle-mediated transport, 0016021 integral to membrane; PDB: 3EGX_C 2NUP_C 3EGD_C 2NUT_C 1IOU_A 1H8M_A 3B5N_A 3ZYM_A 2NPS_A 1SFC_E ....
Probab=49.91 E-value=32 Score=21.97 Aligned_cols=25 Identities=16% Similarity=0.667 Sum_probs=15.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhh
Q 034421 50 KEWRRVDIILIVTLVALILVYLIGC 74 (95)
Q Consensus 50 ~~Wr~~ai~niv~lv~Li~vy~vGC 74 (95)
++++-..++-+++++++++++++.|
T Consensus 64 ~~~k~~~i~~~iv~~~~~~i~~~~~ 88 (89)
T PF00957_consen 64 RNYKLYIIIIIIVIIIILIIIIVIC 88 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTT-
T ss_pred HHHHHHHhHHhhhhhhhhHHHHHHh
Confidence 5666667777666666666666555
No 15
>PF14991 MLANA: Protein melan-A; PDB: 2GTZ_F 2GT9_F 3MRO_P 2GUO_C 3MRQ_P 2GTW_C 3L6F_C 3MRP_P.
Probab=49.50 E-value=5.5 Score=28.81 Aligned_cols=20 Identities=30% Similarity=0.602 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhcccccc
Q 034421 61 VTLVALILVYLIGCCAFRND 80 (95)
Q Consensus 61 v~lv~Li~vy~vGCca~rn~ 80 (95)
+++|+|.++..+|||-+|..
T Consensus 31 iL~VILgiLLliGCWYckRR 50 (118)
T PF14991_consen 31 ILIVILGILLLIGCWYCKRR 50 (118)
T ss_dssp --------------------
T ss_pred eHHHHHHHHHHHhheeeeec
Confidence 44566667778899988753
No 16
>PF13061 DUF3923: Protein of unknown function (DUF3923)
Probab=49.14 E-value=17 Score=23.38 Aligned_cols=26 Identities=19% Similarity=0.330 Sum_probs=21.7
Q ss_pred hHHHHHHHhhhhHHHHHHHHHHHHHH
Q 034421 42 AGLLANLKKEWRRVDIILIVTLVALI 67 (95)
Q Consensus 42 AGvl~~lk~~Wr~~ai~niv~lv~Li 67 (95)
||+.++.+-+|-.+++..+..+++++
T Consensus 30 aGv~qT~~~k~itl~vl~i~~~~i~i 55 (66)
T PF13061_consen 30 AGVVQTPELKLITLAVLGIFFIIILI 55 (66)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHHH
Confidence 79999999999998888877766655
No 17
>KOG1666 consensus V-SNARE [Intracellular trafficking, secretion, and vesicular transport]
Probab=47.07 E-value=28 Score=27.56 Aligned_cols=24 Identities=21% Similarity=0.559 Sum_probs=20.2
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHH
Q 034421 48 LKKEWRRVDIILIVTLVALILVYL 71 (95)
Q Consensus 48 lk~~Wr~~ai~niv~lv~Li~vy~ 71 (95)
+++.|---+|+.+.++++++++|+
T Consensus 194 ~~nk~~~~aii~~l~~~il~ilY~ 217 (220)
T KOG1666|consen 194 IRNKFTLTAIIALLVLAILLILYS 217 (220)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 567888888888888899999886
No 18
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=46.60 E-value=23 Score=29.09 Aligned_cols=24 Identities=25% Similarity=0.472 Sum_probs=20.6
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 49 KKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
=--|..+++|.+++.|+|||.|..
T Consensus 258 F~Pcgiaalvllil~vvliiLYiW 281 (295)
T TIGR01478 258 FLPYGIAALVLIILTVVLIILYIW 281 (295)
T ss_pred hcccHHHHHHHHHHHHHHHHHHHH
Confidence 345888899999999999999987
No 19
>PF01708 Gemini_mov: Geminivirus putative movement protein ; InterPro: IPR002621 This family consists of putative movement proteins from Maize streak virus and Wheat dwarf virus [].; GO: 0046740 spread of virus in host, cell to cell, 0016021 integral to membrane
Probab=45.84 E-value=6.3 Score=27.37 Aligned_cols=28 Identities=36% Similarity=0.475 Sum_probs=21.5
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcccc
Q 034421 51 EWRRVDIILIVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 51 ~Wr~~ai~niv~lv~Li~vy~vGCca~r 78 (95)
.|.++..+.|++|+.+.++|..==+..|
T Consensus 33 ~ws~vv~v~i~~lvaVg~~YL~y~~fLk 60 (91)
T PF01708_consen 33 PWSRVVEVAIFTLVAVGCLYLAYTWFLK 60 (91)
T ss_pred cceeEeeeeehHHHHHHHHHHHHHHHHH
Confidence 7999999999999888888876443333
No 20
>PTZ00370 STEVOR; Provisional
Probab=45.30 E-value=25 Score=28.91 Aligned_cols=24 Identities=21% Similarity=0.456 Sum_probs=20.7
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 49 KKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
=--|..+++|.+++.|+|||.|..
T Consensus 254 F~Pygiaalvllil~vvliilYiw 277 (296)
T PTZ00370 254 FYPYGIAALVLLILAVVLIILYIW 277 (296)
T ss_pred hcccHHHHHHHHHHHHHHHHHHHH
Confidence 445888899999999999999987
No 21
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=45.17 E-value=61 Score=19.27 Aligned_cols=25 Identities=20% Similarity=0.495 Sum_probs=19.1
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHHH
Q 034421 44 LLANLKKEWRRVDIILIVTLVALIL 68 (95)
Q Consensus 44 vl~~lk~~Wr~~ai~niv~lv~Li~ 68 (95)
.++.-.+.|-.++++-|+++++||.
T Consensus 8 ai~aYEr~Wi~F~l~mi~vFi~li~ 32 (38)
T PF09125_consen 8 AIEAYERGWIAFALAMILVFIALIG 32 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 5666788999888888877776653
No 22
>PRK10476 multidrug resistance protein MdtN; Provisional
Probab=44.36 E-value=16 Score=28.57 Aligned_cols=25 Identities=28% Similarity=0.469 Sum_probs=21.3
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHHh
Q 034421 49 KKEWRRVDIILIVTLVALILVYLIG 73 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy~vG 73 (95)
|+.|+++.++-|+++++|+++|.+.
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~ 31 (346)
T PRK10476 7 KSPRKKLPALAIVALAIVALVFVIW 31 (346)
T ss_pred CCCcccchhHHHHHHHHHHHHHHhe
Confidence 5679999999999998888888875
No 23
>PF11807 DUF3328: Domain of unknown function (DUF3328); InterPro: IPR021765 This family of proteins are functionally uncharacterised. This family is only found in eukaryotes.
Probab=43.10 E-value=31 Score=23.98 Aligned_cols=33 Identities=18% Similarity=0.565 Sum_probs=19.9
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q 034421 49 KKEWRRVDIILIVTLVALILVYLIGCCAFRNDK 81 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy~vGCca~rn~r 81 (95)
++.|+...++.++++++++++.+++-..++..+
T Consensus 7 ~~~w~~~~~~~~~~l~~~l~~~~~~~~~~~~~~ 39 (217)
T PF11807_consen 7 RRRWRRLLLLFLLLLILSLLLLVLAVLLRRSSS 39 (217)
T ss_pred CccHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 356887766666666666666665555554433
No 24
>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=39.52 E-value=9.8 Score=30.79 Aligned_cols=31 Identities=19% Similarity=0.454 Sum_probs=0.0
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q 034421 51 EWRRVDIILIVTLVALILVYLIGCCAFRNDK 81 (95)
Q Consensus 51 ~Wr~~ai~niv~lv~Li~vy~vGCca~rn~r 81 (95)
+|-...|..+|++++|+|.-+|+|+-+|..|
T Consensus 144 ~yL~T~IpaVVI~~iLLIA~iIa~icyrrkR 174 (290)
T PF05454_consen 144 DYLHTFIPAVVIAAILLIAGIIACICYRRKR 174 (290)
T ss_dssp -------------------------------
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHhhhhhh
Confidence 4555566777777788888888888888544
No 25
>PF12911 OppC_N: N-terminal TM domain of oligopeptide transport permease C
Probab=38.95 E-value=44 Score=19.42 Aligned_cols=28 Identities=14% Similarity=0.457 Sum_probs=13.8
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHh
Q 034421 44 LLANLKKEWRRVDIILIVTLVALILVYLIG 73 (95)
Q Consensus 44 vl~~lk~~Wr~~ai~niv~lv~Li~vy~vG 73 (95)
+...++++ +++++-.+++++++++-.+|
T Consensus 8 ~~~~f~~n--k~a~~gl~il~~~vl~ai~~ 35 (56)
T PF12911_consen 8 AWRRFRRN--KLAVIGLIILLILVLLAIFA 35 (56)
T ss_pred HHHHHHhC--chHHHHHHHHHHHHHHHHHH
Confidence 44555553 34555555555554444443
No 26
>TIGR02459 CbtB cobalt transporter subunit CbtB (proposed). This model represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems. Evidence for this assignment includes 1) prediction of a single trans-membrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional trans-membrane segments.
Probab=36.70 E-value=54 Score=21.13 Aligned_cols=17 Identities=41% Similarity=0.888 Sum_probs=12.3
Q ss_pred HHHHHHHHHHHHHHhhc
Q 034421 59 LIVTLVALILVYLIGCC 75 (95)
Q Consensus 59 niv~lv~Li~vy~vGCc 75 (95)
-...++.|+++|++|-.
T Consensus 23 ~~a~~lgl~~ly~vG~~ 39 (60)
T TIGR02459 23 LVAALLGLFLVYFVGFS 39 (60)
T ss_pred HHHHHHHHHHHHHHhhc
Confidence 34456788899999863
No 27
>PRK11653 hypothetical protein; Provisional
Probab=34.24 E-value=45 Score=26.24 Aligned_cols=30 Identities=30% Similarity=0.596 Sum_probs=19.0
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHHHHhhc
Q 034421 45 LANLKKEWRRVDIILIVTLVALILVYLIGCC 75 (95)
Q Consensus 45 l~~lk~~Wr~~ai~niv~lv~Li~vy~vGCc 75 (95)
++.+||.||...+..+++.+..+ +.+.||-
T Consensus 9 ~~~~rK~~rs~~la~vala~~a~-f~LagC~ 38 (225)
T PRK11653 9 HASFRKNWRSRHLAPVALAVAAV-FMLAGCE 38 (225)
T ss_pred HHHHHhhhccchhHHHHHHHHHH-HHHhccC
Confidence 57899999876666664444433 4455674
No 28
>PF07423 DUF1510: Protein of unknown function (DUF1510); InterPro: IPR009988 This family consists of several hypothetical bacterial proteins of around 200 residues in length. The function of this family is unknown.
Probab=34.06 E-value=55 Score=25.45 Aligned_cols=28 Identities=14% Similarity=0.227 Sum_probs=19.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcccc
Q 034421 51 EWRRVDIILIVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 51 ~Wr~~ai~niv~lv~Li~vy~vGCca~r 78 (95)
.=|.-.|+||.+.|.+++|-+++--.|-
T Consensus 9 rRK~N~iLNiaI~IV~lLIiiva~~lf~ 36 (217)
T PF07423_consen 9 RRKTNKILNIAIGIVSLLIIIVAYQLFF 36 (217)
T ss_pred hhhhhhhHHHHHHHHHHHHHHHhhhhee
Confidence 3445567888877777777777766665
No 29
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=33.94 E-value=52 Score=22.34 Aligned_cols=16 Identities=31% Similarity=0.507 Sum_probs=6.7
Q ss_pred HHHHHHHHHHHHHHHH
Q 034421 54 RVDIILIVTLVALILV 69 (95)
Q Consensus 54 ~~ai~niv~lv~Li~v 69 (95)
|..++..++|++|++|
T Consensus 4 K~~llL~l~LA~lLli 19 (95)
T PF07172_consen 4 KAFLLLGLLLAALLLI 19 (95)
T ss_pred hHHHHHHHHHHHHHHH
Confidence 3344444444443333
No 30
>PF13800 Sigma_reg_N: Sigma factor regulator N-terminal
Probab=33.88 E-value=62 Score=21.09 Aligned_cols=24 Identities=38% Similarity=0.596 Sum_probs=10.4
Q ss_pred HhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 49 KKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
|.-|+.+.+.-+++++++++.++.
T Consensus 11 k~~l~~~~isi~~~lvi~~i~~~~ 34 (96)
T PF13800_consen 11 KSRLRTVVISIISALVIFIISFII 34 (96)
T ss_pred HHHHHHHHHHHhhhhhhHHHHHHh
Confidence 344554444444444444434433
No 31
>PF11694 DUF3290: Protein of unknown function (DUF3290); InterPro: IPR021707 This family of proteins with unknown function appears to be restricted to Firmicutes.
Probab=33.76 E-value=34 Score=24.98 Aligned_cols=22 Identities=32% Similarity=0.576 Sum_probs=15.8
Q ss_pred HHhhhhHHHHHHHHHHHHHHHH
Q 034421 48 LKKEWRRVDIILIVTLVALILV 69 (95)
Q Consensus 48 lk~~Wr~~ai~niv~lv~Li~v 69 (95)
+..+||.++|+-++++++++.+
T Consensus 42 ~~tKyRDL~II~~L~ll~l~gi 63 (149)
T PF11694_consen 42 LDTKYRDLSIIALLLLLLLIGI 63 (149)
T ss_pred CcchhhhHHHHHHHHHHHHHHH
Confidence 4568899888877777666543
No 32
>PF15188 CCDC-167: Coiled-coil domain-containing protein 167
Probab=33.56 E-value=69 Score=21.73 Aligned_cols=26 Identities=31% Similarity=0.465 Sum_probs=18.5
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHHH
Q 034421 45 LANLKKEWRRVDIILIVTLVALILVY 70 (95)
Q Consensus 45 l~~lk~~Wr~~ai~niv~lv~Li~vy 70 (95)
|..||++=|+-..+-+++++++.++|
T Consensus 59 L~~LrkENrK~~~ls~~l~~v~~LvY 84 (85)
T PF15188_consen 59 LKLLRKENRKSMLLSVALFFVCFLVY 84 (85)
T ss_pred HHHHHHhhhhhHHHHHHHHHHHHHHc
Confidence 56777777777777777676676766
No 33
>PF13937 DUF4212: Domain of unknown function (DUF4212)
Probab=33.48 E-value=49 Score=22.04 Aligned_cols=28 Identities=25% Similarity=0.352 Sum_probs=18.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccccchhhhh
Q 034421 54 RVDIILIVTLVALILVYLIGCCAFRNDKTEDLF 86 (95)
Q Consensus 54 ~~ai~niv~lv~Li~vy~vGCca~rn~r~~~~~ 86 (95)
-++-..++++++||++|.. +-+|-|+.|
T Consensus 50 ~aaQGsi~~fviLi~~Ya~-----~mnrlD~~~ 77 (81)
T PF13937_consen 50 FAAQGSIIVFVILIFVYAW-----RMNRLDRKY 77 (81)
T ss_pred HHHHhHHHHHHHHHHHHHH-----HHHHHHHHH
Confidence 3455667788888888876 555555544
No 34
>PF15298 AJAP1_PANP_C: AJAP1/PANP C-terminus
Probab=33.12 E-value=28 Score=27.33 Aligned_cols=30 Identities=27% Similarity=0.626 Sum_probs=17.8
Q ss_pred HHHHHHHHHHHHHHHH-hhccccccchhhhh
Q 034421 57 IILIVTLVALILVYLI-GCCAFRNDKTEDLF 86 (95)
Q Consensus 57 i~niv~lv~Li~vy~v-GCca~rn~r~~~~~ 86 (95)
|-.|++|+.||-..++ -||+...++|.++.
T Consensus 106 vSlImViaAliTtlvlK~C~~~s~~~r~~s~ 136 (205)
T PF15298_consen 106 VSLIMVIAALITTLVLKNCCAQSQNRRRNSH 136 (205)
T ss_pred eehhHHHHHhhhhhhhhhhhhhhcccCCCcc
Confidence 3345555555433322 29998888877765
No 35
>KOG3658 consensus Tumor necrosis factor-alpha-converting enzyme (TACE/ADAM17) and related metalloproteases [Extracellular structures]
Probab=32.98 E-value=57 Score=30.04 Aligned_cols=28 Identities=32% Similarity=0.737 Sum_probs=18.2
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhhcccccc
Q 034421 51 EWRRVDIILIVTLVALILVYLIGCCAFRND 80 (95)
Q Consensus 51 ~Wr~~ai~niv~lv~Li~vy~vGCca~rn~ 80 (95)
+|.++.|+-|++++ +.+++|+|||....
T Consensus 682 ~w~~v~i~gi~~i~--~m~~fik~~aVht~ 709 (764)
T KOG3658|consen 682 NWLAVNIVGIVLIV--LMAFFIKICAVHTP 709 (764)
T ss_pred hhHHhHhHHHHHHH--HHHHhhhheEEecc
Confidence 56666555555444 34678999998864
No 36
>TIGR01625 YidE_YbjL_dupl AspT/YidE/YbjL antiporter duplication domain. This model represents a domain that is duplicated the aspartate-alanine antiporter AspT, as well as HI0035 of Haemophilus influenzae, YidE and YbjL of E. coli, and a number of other known or putative transporters. Member proteins may have 0, 1, or 2 copies of TrkA potassium uptake domain pfam02080 between the duplications. The domain contains several apparent transmembrane regions and is proposed here to act in transport.
Probab=32.30 E-value=1e+02 Score=22.41 Aligned_cols=38 Identities=24% Similarity=0.259 Sum_probs=26.2
Q ss_pred hHHHHHHHhhh--hHHHHHHHHHHHHHHHHHHHhhccccc
Q 034421 42 AGLLANLKKEW--RRVDIILIVTLVALILVYLIGCCAFRN 79 (95)
Q Consensus 42 AGvl~~lk~~W--r~~ai~niv~lv~Li~vy~vGCca~rn 79 (95)
.++.+.+|+.+ ..+.+.-++.++..++++.++...++=
T Consensus 73 ~~f~~~l~~~gg~~~~~~g~~v~~~~~~~~~~~~~~~~~~ 112 (154)
T TIGR01625 73 PGFFSSLKDGGGLLRINGGALITVVPTLLVAVALIKLLRI 112 (154)
T ss_pred HHHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence 46889999975 666666666666666777776655553
No 37
>PF05915 DUF872: Eukaryotic protein of unknown function (DUF872); InterPro: IPR008590 This entry represents several uncharacterised eukaryotic transmembrane proteins. The function of this currently unknown.
Probab=32.04 E-value=75 Score=22.28 Aligned_cols=22 Identities=14% Similarity=0.564 Sum_probs=14.9
Q ss_pred HHHhhhhHHHHHHHHHHHHHHH
Q 034421 47 NLKKEWRRVDIILIVTLVALIL 68 (95)
Q Consensus 47 ~lk~~Wr~~ai~niv~lv~Li~ 68 (95)
.+|..||.+++.-.++++.+++
T Consensus 36 ~~k~pwK~I~la~~Lli~G~~l 57 (115)
T PF05915_consen 36 KVKIPWKSIALAVFLLIFGTVL 57 (115)
T ss_pred hhHHHHHHHHHHHHHHHHHHHH
Confidence 5688999877766665555443
No 38
>PHA02947 S-S bond formation pathway protein; Provisional
Probab=31.56 E-value=26 Score=27.65 Aligned_cols=21 Identities=24% Similarity=0.765 Sum_probs=11.5
Q ss_pred HHHhhccccccchhhhhhccccCCC
Q 034421 70 YLIGCCAFRNDKTEDLFRKYKQGTY 94 (95)
Q Consensus 70 y~vGCca~rn~r~~~~~~~~~~~~~ 94 (95)
+.+|-|..|..-+- +|+.|+|
T Consensus 192 ~~i~i~~irR~i~l----ky~Yg~~ 212 (215)
T PHA02947 192 FVIAICSIKRKINL----KYRYGSF 212 (215)
T ss_pred HHHHHHHHHHHhee----eEeeeeE
Confidence 33444555544331 5888887
No 39
>PF15176 LRR19-TM: Leucine-rich repeat family 19 TM domain
Probab=31.46 E-value=57 Score=23.09 Aligned_cols=34 Identities=9% Similarity=0.341 Sum_probs=23.5
Q ss_pred hhhhHHH-HHHHHHHHHHHHHHHHhhccccccchh
Q 034421 50 KEWRRVD-IILIVTLVALILVYLIGCCAFRNDKTE 83 (95)
Q Consensus 50 ~~Wr~~a-i~niv~lv~Li~vy~vGCca~rn~r~~ 83 (95)
+.|.-+. ++..++.+.|+|+.++=|-..|+.+..
T Consensus 15 ~sW~~LVGVv~~al~~SlLIalaaKC~~~~k~~~S 49 (102)
T PF15176_consen 15 RSWPFLVGVVVTALVTSLLIALAAKCPVWYKYLAS 49 (102)
T ss_pred cccHhHHHHHHHHHHHHHHHHHHHHhHHHHHHHhc
Confidence 5787664 444455567778888889888886654
No 40
>PF14857 TMEM151: TMEM151 family
Probab=31.35 E-value=48 Score=28.56 Aligned_cols=23 Identities=26% Similarity=0.483 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHhhcccc
Q 034421 56 DIILIVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 56 ai~niv~lv~Li~vy~vGCca~r 78 (95)
..|.++++++|.+||.+.|+-.+
T Consensus 68 iyIplaf~~mlYviYlvECwhs~ 90 (425)
T PF14857_consen 68 IYIPLAFLIMLYVIYLVECWHSS 90 (425)
T ss_pred hhHHHHHHHHHHHHHHHHHhcch
Confidence 46889999999999999996554
No 41
>PHA02955 hypothetical protein; Provisional
Probab=31.07 E-value=35 Score=26.86 Aligned_cols=7 Identities=57% Similarity=1.027 Sum_probs=5.7
Q ss_pred ccccCCC
Q 034421 88 KYKQGTY 94 (95)
Q Consensus 88 ~~~~~~~ 94 (95)
+|+.|+|
T Consensus 206 ky~y~~~ 212 (213)
T PHA02955 206 KYIYGVY 212 (213)
T ss_pred eEeeecc
Confidence 5888887
No 42
>PF00020 TNFR_c6: TNFR/NGFR cysteine-rich region; InterPro: IPR001368 A number of proteins, some of which are known to be receptors for growth factors have been found to contain a cysteine-rich domain at the N-terminal region that can be subdivided into four (or in some cases, three) repeats containing six conserved cysteines all of which are involved in intrachain disulphide bonds []. CD27 (also called S152 or T14) mediates a co-stimulatory signal for T and B cell activation and is involved in murine T cell development. Tyrosine-phosphorylation of ZAP-70 following CD27 ligation of T cells has been reported [], but not confirmed independently. CD30 was originally identified as Ki-1, an antigen expressed on Reed-Sternberg cells in Hodgkin's lymphomas and other non-Hodgkin's lymphomas, particularly diffuse large-cell lymphoma and immunoblastic lymphoma. CD30 has pleiotropic effects on CD30-positive lymphoma cell lines ranging from cell proliferation to cell death. It is thought to be involved in negative selection of T-cells in the thymus and is involved in TCR-mediated cell death. CD30 is a member of the TNFR family of molecules, activate NFkB through interaction with TRAF2 and TRAF5. CD40 (Bp50) plays a central role in the regulation of cell-mediated immunity as well as antibody mediated immunity. It is central to T cell dependent (TD)-responses and may influence survival of B cell lymphomas. CD95 (also called APO-1, fas antigen, Fas tumour necrosis factor receptor superfamily, member 6, TNFRSF6 or apoptosis antigen 1, APT1) is expressed, typically at high levels, on activated T and B cells. It is involved in the mediation of apoptosis-inducing signals. Other proteins known to belong to this family [, , , ] are, tumour Necrosis Factor type I and type II receptors (TNFR), Rabbit fibroma virus soluble TNF receptor (protein T2), lymphotoxin alpha/beta receptor, low-affinity nerve growth factor receptor (LA-NGFR) (p75), T-cell antigen OX40, Wsl-1, a receptor (for a yet undefined ligand) that mediates apoptosis and Vaccinia virus protein A53 (SalF19R). CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/).; GO: 0005488 binding; PDB: 3TJE_F 3QD6_S 3ALQ_U 3IJ2_Y 3BUK_D 1SG1_X 1NCF_B 1EXT_A 1FT4_B 1TNR_R ....
Probab=31.01 E-value=25 Score=19.45 Aligned_cols=13 Identities=31% Similarity=0.943 Sum_probs=11.6
Q ss_pred cceecCcchhhHH
Q 034421 32 QLCYNCDSCKAGL 44 (95)
Q Consensus 32 ~LCy~CdSCKAGv 44 (95)
..|..|..|..|.
T Consensus 13 ~~C~~C~~C~~g~ 25 (39)
T PF00020_consen 13 PQCLPCSRCPPGQ 25 (39)
T ss_dssp SSEEEEESBTTTE
T ss_pred CcCCccCCcCcCC
Confidence 7899999999875
No 43
>KOG0810 consensus SNARE protein Syntaxin 1 and related proteins [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.85 E-value=35 Score=27.59 Aligned_cols=32 Identities=19% Similarity=0.550 Sum_probs=19.4
Q ss_pred hhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 41 KAGLLANLKKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 41 KAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
||-..+.--+.|..+.|+-+++++++++++.+
T Consensus 259 kAv~~qkkaRK~k~i~ii~~iii~~v~v~~i~ 290 (297)
T KOG0810|consen 259 KAVKYQKKARKWKIIIIIILIIIIVVLVVVIV 290 (297)
T ss_pred HHHHHHHHhhhceeeeehHHHHHHHHHhhhhc
Confidence 44455555567777776666666665555554
No 44
>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=30.57 E-value=47 Score=22.45 Aligned_cols=29 Identities=17% Similarity=0.202 Sum_probs=16.8
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhcccc
Q 034421 50 KEWRRVDIILIVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 50 ~~Wr~~ai~niv~lv~Li~vy~vGCca~r 78 (95)
..+..+.+..+.++++||++|++=-..+-
T Consensus 59 ~~~~iili~lls~v~IlVily~IyYFVIL 87 (101)
T PF06024_consen 59 NNGNIILISLLSFVCILVILYAIYYFVIL 87 (101)
T ss_pred ccccchHHHHHHHHHHHHHHhhheEEEEE
Confidence 34555555566666667777766444433
No 45
>PF11511 RhodobacterPufX: Intrinsic membrane protein PufX; InterPro: IPR020169 PufX organises RC-LH1, the photosynthesis reaction centre-light harvesting complex 1 core complex of Rhodobacter sphaeroides []. It also facilitates the exchange of quinol for quinone between the reaction centre and cytochrome bc(1) complexes. In organic solvent, PufX contains two hydrophobic helices which are flanked by unstructured regions and connected by a helical bend [].; PDB: 2DW3_A 2ITA_A 2NRG_A.
Probab=30.33 E-value=78 Score=20.84 Aligned_cols=20 Identities=20% Similarity=0.482 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034421 55 VDIILIVTLVALILVYLIGC 74 (95)
Q Consensus 55 ~ai~niv~lv~Li~vy~vGC 74 (95)
++++.+..+++++..|.+|=
T Consensus 31 Aav~~~~~~~~l~~~~~iG~ 50 (67)
T PF11511_consen 31 AAVFFLGLWFLLVALYFIGL 50 (67)
T ss_dssp HHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 46777777788888888884
No 46
>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=29.72 E-value=72 Score=22.80 Aligned_cols=16 Identities=25% Similarity=0.407 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 034421 57 IILIVTLVALILVYLI 72 (95)
Q Consensus 57 i~niv~lv~Li~vy~v 72 (95)
++.-|++++|+|.|++
T Consensus 73 v~aGvIg~Illi~y~i 88 (122)
T PF01102_consen 73 VMAGVIGIILLISYCI 88 (122)
T ss_dssp HHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3333444555555655
No 47
>KOG1747 consensus Protein tyrosine kinase 9/actin monomer-binding protein [Extracellular structures]
Probab=28.79 E-value=30 Score=29.03 Aligned_cols=15 Identities=47% Similarity=0.893 Sum_probs=13.3
Q ss_pred chhhHHHHHHHhhhh
Q 034421 39 SCKAGLLANLKKEWR 53 (95)
Q Consensus 39 SCKAGvl~~lk~~Wr 53 (95)
|||.|+|+.++++-.
T Consensus 272 ScK~~fLd~~k~~~g 286 (342)
T KOG1747|consen 272 SCKSGFLDSLKNDLG 286 (342)
T ss_pred hcchhHHHHHHHhcC
Confidence 599999999998865
No 48
>PF05568 ASFV_J13L: African swine fever virus J13L protein; InterPro: IPR008385 This family consists of several African swine fever virus (ASFV) j13L proteins [, , ].
Probab=28.66 E-value=56 Score=25.07 Aligned_cols=25 Identities=28% Similarity=0.489 Sum_probs=17.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhhcccc
Q 034421 54 RVDIILIVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 54 ~~ai~niv~lv~Li~vy~vGCca~r 78 (95)
-.-+++|+++++.|+|.+.-|...+
T Consensus 32 ~tILiaIvVliiiiivli~lcssRK 56 (189)
T PF05568_consen 32 YTILIAIVVLIIIIIVLIYLCSSRK 56 (189)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhh
Confidence 3456777777777777777776543
No 49
>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=28.58 E-value=39 Score=26.45 Aligned_cols=29 Identities=28% Similarity=0.283 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhhccccccch
Q 034421 54 RVDIILIVTLVALILVYLIGCCAFRNDKT 82 (95)
Q Consensus 54 ~~ai~niv~lv~Li~vy~vGCca~rn~r~ 82 (95)
.+-|+--++|++||++=++++...|..++
T Consensus 272 ~vPIaVG~~La~lvlivLiaYli~Rrr~~ 300 (306)
T PF01299_consen 272 LVPIAVGAALAGLVLIVLIAYLIGRRRSR 300 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHhheeEecccc
Confidence 34444444455555555666666665444
No 50
>PLN02518 pheophorbide a oxygenase
Probab=28.20 E-value=82 Score=27.46 Aligned_cols=17 Identities=29% Similarity=0.782 Sum_probs=10.5
Q ss_pred cCcchhhHHHHHHHhhhhH
Q 034421 36 NCDSCKAGLLANLKKEWRR 54 (95)
Q Consensus 36 ~CdSCKAGvl~~lk~~Wr~ 54 (95)
.|.||++.+ .+|+ .+++
T Consensus 466 ~C~SC~~Al-k~i~-~~~~ 482 (539)
T PLN02518 466 NCSSCKGAY-KAFQ-TLQK 482 (539)
T ss_pred cChhHHHHH-HHHH-HHHH
Confidence 689998764 4444 3444
No 51
>PF07970 COPIIcoated_ERV: Endoplasmic reticulum vesicle transporter ; InterPro: IPR012936 This domain occurs in many hypothetical proteins, and also two partially characterised proteins. One of these proteins, PTX1 Q96RQ1 from SWISSPROT, is a homeodomain-containing transcription factor involved in regulating all pituitary hormone genes []. This protein is down regulated in prostate carcinoma []. The other protein, ERGIC-32 Q969X5 from SWISSPROT, is involved in protein transport from the ER to the Golgi [].
Probab=28.18 E-value=36 Score=25.70 Aligned_cols=20 Identities=35% Similarity=0.617 Sum_probs=17.5
Q ss_pred CcchhhHHHHHHHhhhhHHH
Q 034421 37 CDSCKAGLLANLKKEWRRVD 56 (95)
Q Consensus 37 CdSCKAGvl~~lk~~Wr~~a 56 (95)
|++|++-.-+.-++.|..-.
T Consensus 12 CnTC~~V~~ay~~~~w~~~~ 31 (222)
T PF07970_consen 12 CNTCEDVREAYRKKGWAFPD 31 (222)
T ss_pred CcCHHHHHHHHHHhCCCCCC
Confidence 99999999999999998643
No 52
>PF14424 Toxin-deaminase: The BURPS668_1122 family of deaminases
Probab=27.92 E-value=36 Score=24.24 Aligned_cols=19 Identities=26% Similarity=0.864 Sum_probs=15.6
Q ss_pred cCcchhhHHHHHHHhhhhHH
Q 034421 36 NCDSCKAGLLANLKKEWRRV 55 (95)
Q Consensus 36 ~CdSCKAGvl~~lk~~Wr~~ 55 (95)
=|+||.. |+++.+++|..+
T Consensus 107 pC~SC~~-vi~qF~~~~pni 125 (133)
T PF14424_consen 107 PCESCSN-VIEQFKKDFPNI 125 (133)
T ss_pred cChhHHH-HHHHHHHHCCCc
Confidence 3899986 999999998754
No 53
>PRK14750 kdpF potassium-transporting ATPase subunit F; Provisional
Probab=27.83 E-value=99 Score=17.40 Aligned_cols=24 Identities=38% Similarity=0.463 Sum_probs=13.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhcccccc
Q 034421 55 VDIILIVTLVALILVYLIGCCAFRND 80 (95)
Q Consensus 55 ~ai~niv~lv~Li~vy~vGCca~rn~ 80 (95)
++++.-.+++++.+.|.+ .|.-|+
T Consensus 3 ~~vi~g~llv~lLl~YLv--YAL~na 26 (29)
T PRK14750 3 FSIVCGALLVLLLLGYLV--YALFNA 26 (29)
T ss_pred HHHHHHHHHHHHHHHHHH--HHHcCc
Confidence 345555566666666655 555554
No 54
>smart00208 TNFR Tumor necrosis factor receptor / nerve growth factor receptor repeats. Repeats in growth factor receptors that are involved in growth factor binding. TNF/TNFR
Probab=27.72 E-value=32 Score=18.67 Aligned_cols=13 Identities=38% Similarity=1.093 Sum_probs=11.1
Q ss_pred cceecCcchhhHH
Q 034421 32 QLCYNCDSCKAGL 44 (95)
Q Consensus 32 ~LCy~CdSCKAGv 44 (95)
..|..|..|..|.
T Consensus 13 ~~C~~C~~C~~g~ 25 (39)
T smart00208 13 SSCLRCRRCPPGL 25 (39)
T ss_pred ccCccCCCCCCCC
Confidence 6899999999875
No 55
>PF04324 Fer2_BFD: BFD-like [2Fe-2S] binding domain; InterPro: IPR007419 The two Fe ions are each coordinated by two conserved cysteine residues. This domain occurs alone in small proteins such as bacterioferritin-associated ferredoxin (BFD, P13655 from SWISSPROT). The function of BFD is not known, but it may be a general redox and/or regulatory component involved in the iron storage or mobilisation functions of bacterioferritin in bacteria []. This domain is also found in nitrate reductase proteins in association with the nitrite and sulphite reductase 4Fe-4S domain (IPR006067 from INTERPRO), nitrite/sulphite reductase ferredoxin-like half domain (IPR005117 from INTERPRO) and pyridine nucleotide-disulphide oxidoreductase (IPR001327 from INTERPRO). It is also found in NifU nitrogen fixation proteins, in association with NifU-like N-terminal domain (IPR002871 from INTERPRO) and C-terminal domain (IPR001075 from INTERPRO).; PDB: 2HU9_A.
Probab=27.69 E-value=19 Score=21.17 Aligned_cols=19 Identities=32% Similarity=0.678 Sum_probs=2.7
Q ss_pred eecCcchhhHHHHHHHhhh
Q 034421 34 CYNCDSCKAGLLANLKKEW 52 (95)
Q Consensus 34 Cy~CdSCKAGvl~~lk~~W 52 (95)
--.|.+|+..+-+-|++.|
T Consensus 37 g~~Cg~C~~~v~~ll~e~~ 55 (55)
T PF04324_consen 37 GTGCGSCVPEVKDLLAEEW 55 (55)
T ss_dssp SS-TH--------------
T ss_pred CCCCCCccccccccccccC
Confidence 4468999998777777776
No 56
>PF14914 LRRC37AB_C: LRRC37A/B like protein 1 C-terminal domain
Probab=27.32 E-value=80 Score=23.82 Aligned_cols=22 Identities=32% Similarity=0.690 Sum_probs=13.2
Q ss_pred HHHHHHHHHHhhccccccchhh
Q 034421 63 LVALILVYLIGCCAFRNDKTED 84 (95)
Q Consensus 63 lv~Li~vy~vGCca~rn~r~~~ 84 (95)
.+++|+++.+-+|.-|.+..++
T Consensus 132 ~iliii~CLiei~shr~a~~~~ 153 (154)
T PF14914_consen 132 MILIIIFCLIEICSHRRASEED 153 (154)
T ss_pred HHHHHHHHHHHHHhcccccccC
Confidence 4444555666667777766543
No 57
>PF09049 SNN_transmemb: Stannin transmembrane; InterPro: IPR015135 This region consists of a single highly hydrophobic transmembrane helix that transverses the lipid bilayer at a 20 degree angle with respect to the membrane normal. It contains a conserved cysteine residue (Cys32) that, together with Cys34 found in the stannin unstructured linker domain, constitutes the putative trimethyltin-binding site that resides at the end of the transmembrane domain close to the lipid/solvent interface []. ; PDB: 1ZZA_A.
Probab=27.12 E-value=1.3e+02 Score=17.28 Aligned_cols=12 Identities=33% Similarity=0.609 Sum_probs=6.4
Q ss_pred HHHHHHHHHhhc
Q 034421 64 VALILVYLIGCC 75 (95)
Q Consensus 64 v~Li~vy~vGCc 75 (95)
+...-+...||+
T Consensus 22 vaalg~licgcw 33 (33)
T PF09049_consen 22 VAALGALICGCW 33 (33)
T ss_dssp HHHHHHHHHHHH
T ss_pred HHHHhhhheecC
Confidence 334445566774
No 58
>TIGR01732 tiny_TM_bacill conserved hypothetical tiny transmembrane protein. This model represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=26.40 E-value=72 Score=17.54 Aligned_cols=7 Identities=14% Similarity=0.596 Sum_probs=2.7
Q ss_pred HHHHHHH
Q 034421 62 TLVALIL 68 (95)
Q Consensus 62 ~lv~Li~ 68 (95)
++++|||
T Consensus 14 LFILLII 20 (26)
T TIGR01732 14 LFILLVI 20 (26)
T ss_pred HHHHHHH
Confidence 3334443
No 59
>KOG3882 consensus Tetraspanin family integral membrane protein [General function prediction only]
Probab=25.98 E-value=1.6e+02 Score=21.64 Aligned_cols=46 Identities=15% Similarity=0.234 Sum_probs=34.6
Q ss_pred cCcchhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhccccccc
Q 034421 36 NCDSCKAGLLANLKKEWRRVDIILIVTLVALILVYLIGCCAFRNDK 81 (95)
Q Consensus 36 ~CdSCKAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~vGCca~rn~r 81 (95)
..+-|-+-+.+.++++...++++.+.++++-++....+|+....-+
T Consensus 184 ~~~GC~~~~~~~~~~~~~~i~~~~~~i~~~~~~~~~~a~~l~~~i~ 229 (237)
T KOG3882|consen 184 YTEGCLEKLSSWLESNLLIIGGVGLGIAVLELLGMILACCLANAIR 229 (237)
T ss_pred hccccHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3556888888888888888888888887777777777776555443
No 60
>TIGR02484 CitB CitB domain protein. CobZ is essential for cobalamin biosynthesis (by knockout of the R. capsulatus gene ) and is complemented by the characterized precorrin 3B synthase CobG. The enzyme has been shown to contain flavin, heme and Fe-S cluster cofactors and is believed to require dioxygen as a substrate. This model identifies the C-terminal domain of the R. capsulatus CobZ, which, in most other species exists as a separate gene adjacent to CobZ.
Probab=25.80 E-value=1.2e+02 Score=25.50 Aligned_cols=9 Identities=56% Similarity=1.582 Sum_probs=8.3
Q ss_pred cceecCcch
Q 034421 32 QLCYNCDSC 40 (95)
Q Consensus 32 ~LCy~CdSC 40 (95)
.+|++|+-|
T Consensus 48 ~lChnC~~C 56 (372)
T TIGR02484 48 HLCHDCQSC 56 (372)
T ss_pred HHCcCcccc
Confidence 599999999
No 61
>PF02723 NS3_envE: Non-structural protein NS3/Small envelope protein E; InterPro: IPR003873 This is a family of small nonstructural proteins, well conserved among Coronavirus strains. This protein is also found in Murine hepatitis virus as small envelope protein E.; GO: 0016020 membrane
Probab=25.79 E-value=56 Score=22.11 Aligned_cols=8 Identities=38% Similarity=1.082 Sum_probs=4.1
Q ss_pred Hhhccccc
Q 034421 72 IGCCAFRN 79 (95)
Q Consensus 72 vGCca~rn 79 (95)
.+||-+=|
T Consensus 41 ~~cc~~~n 48 (82)
T PF02723_consen 41 FQCCRLCN 48 (82)
T ss_pred HHHhhhhc
Confidence 34555544
No 62
>PF10215 Ost4: Oligosaccaryltransferase ; InterPro: IPR018943 Ost4 is a very short, approximately 30 residues, enzyme found from fungi to vertebrates. It is a member of the ER oligosaccaryltansferase complex, 2.4.1.119 from EC, that catalyses the asparagine-linked glycosylation of proteins. It appears to be an integral membrane protein that mediates the en bloc transfer of a pre-assembled high-mannose oligosaccharide onto asparagine residues of nascent polypeptides as they enter the lumen of the rough endoplasmic reticulum. ; PDB: 1RKL_A 2LAT_A.
Probab=25.61 E-value=1.1e+02 Score=17.62 Aligned_cols=19 Identities=26% Similarity=0.387 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 034421 54 RVDIILIVTLVALILVYLI 72 (95)
Q Consensus 54 ~~ai~niv~lv~Li~vy~v 72 (95)
.++++.-++.++||++|=.
T Consensus 9 ~lan~lG~~~~~LIVlYH~ 27 (35)
T PF10215_consen 9 TLANFLGVAAMVLIVLYHF 27 (35)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4566666777778887743
No 63
>PRK13872 conjugal transfer protein TrbF; Provisional
Probab=24.84 E-value=1.7e+02 Score=22.05 Aligned_cols=23 Identities=13% Similarity=0.222 Sum_probs=13.5
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHH
Q 034421 43 GLLANLKKEWRRVDIILIVTLVA 65 (95)
Q Consensus 43 Gvl~~lk~~Wr~~ai~niv~lv~ 65 (95)
|-+..-++.|+.++++.+++.++
T Consensus 32 ~~~~~~~~~w~~va~~~l~i~~~ 54 (228)
T PRK13872 32 GSARVQARNWRLMAFGCLALSAG 54 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 44445566899777655544433
No 64
>PF11190 DUF2976: Protein of unknown function (DUF2976); InterPro: IPR021356 Members of this protein family are found occasionally on plasmids such as the Pseudomonas putida TOL plasmid pWWO_p085. Usually, however, they are found on the bacterial main chromosome in a region flanked by markers of conjugative transfer and/or transposition.
Probab=24.56 E-value=89 Score=21.23 Aligned_cols=22 Identities=32% Similarity=0.622 Sum_probs=15.6
Q ss_pred HhhhhHHHHHHHHHHHHHHHHH
Q 034421 49 KKEWRRVDIILIVTLVALILVY 70 (95)
Q Consensus 49 k~~Wr~~ai~niv~lv~Li~vy 70 (95)
|+.|.++...-++-.++|+++.
T Consensus 57 K~~W~~fg~~~vVGvvLlv~vi 78 (87)
T PF11190_consen 57 KKTWGDFGATVVVGVVLLVFVI 78 (87)
T ss_pred cccHHHhhhHHHHHHHHHHHHH
Confidence 6789998877777666655543
No 65
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=24.40 E-value=93 Score=20.14 Aligned_cols=12 Identities=33% Similarity=0.805 Sum_probs=8.0
Q ss_pred ceecCcchhhHH
Q 034421 33 LCYNCDSCKAGL 44 (95)
Q Consensus 33 LCy~CdSCKAGv 44 (95)
-||.|+|=-...
T Consensus 2 ~c~rc~~~p~d~ 13 (61)
T PF06692_consen 2 ACCRCDSAPGDY 13 (61)
T ss_pred cccccCCCCccc
Confidence 488888865443
No 66
>PF09489 CbtB: Probable cobalt transporter subunit (CbtB); InterPro: IPR012667 This entry represents a family of proteins which have been proposed to act as cobalt transporters acting in concert with vitamin B12 biosynthesis systems []. Evidence for this assignment includes 1) prediction of a single transmembrane segment and a C-terminal histidine-rich motif likely to be a metal-binding site, 2) positional gene linkage with known B12 biosynthesis genes, 3) upstream proximity of B12 transcriptional regulatory sites, 4) the absence of other known cobalt import systems and 5) the obligate co-localization with a protein (CbtA) predicted to have five additional transmembrane segments.
Probab=24.34 E-value=1.5e+02 Score=18.55 Aligned_cols=24 Identities=25% Similarity=0.468 Sum_probs=17.3
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHhh
Q 034421 51 EWRRVDIILIVTLVALILVYLIGC 74 (95)
Q Consensus 51 ~Wr~~ai~niv~lv~Li~vy~vGC 74 (95)
.+.++..+...+++.+.++|.+|-
T Consensus 9 ~~~~~~~~~~a~~lg~~l~~~~gf 32 (54)
T PF09489_consen 9 SASRLVQAAAAALLGLLLLYFVGF 32 (54)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHh
Confidence 445566666667778888999985
No 67
>PF00974 Rhabdo_glycop: Rhabdovirus spike glycoprotein; InterPro: IPR001903 Different families of ssRNA negative-strand viruses contain glycoproteins responsible for forming spikes on the surface of the virion. The glycoprotein spike is made up of a trimer of glycoproteins. These proteins are frequently abbreviated to G protein. Channel formed by glycoprotein spike is thought to function in a similar manner to Influenza virus M2 protein channel, thus allowing a signal to pass across the viral membrane to signal for viral uncoating [, ].; GO: 0019031 viral envelope; PDB: 2CMZ_C 2J6J_A 3EGD_D.
Probab=24.32 E-value=25 Score=30.04 Aligned_cols=11 Identities=18% Similarity=0.371 Sum_probs=0.0
Q ss_pred hhhhHHHHHHH
Q 034421 50 KEWRRVDIILI 60 (95)
Q Consensus 50 ~~Wr~~ai~ni 60 (95)
..|.....+-+
T Consensus 449 ~~W~~~~~~~~ 459 (501)
T PF00974_consen 449 SNWGEWLSIIA 459 (501)
T ss_dssp -----------
T ss_pred ccHHHHHHHHH
Confidence 34655443333
No 68
>KOG4779 consensus Predicted membrane protein [Function unknown]
Probab=24.29 E-value=2e+02 Score=19.51 Aligned_cols=46 Identities=22% Similarity=0.437 Sum_probs=28.6
Q ss_pred eeeeCCCCcceecC--cchhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHH
Q 034421 24 LQWGNDQMQLCYNC--DSCKAGLLANLKKEWRRVDIILIVTLVALILVYL 71 (95)
Q Consensus 24 i~WsNd~~~LCy~C--dSCKAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~ 71 (95)
|-|||||..- |+= +.=|..+++-+|. =|.+.-++.+.+=.++|||.
T Consensus 31 iGws~d~~~g-FG~~q~tiKS~~~~LIra-vrTvmrvPLI~iN~ivIVy~ 78 (82)
T KOG4779|consen 31 IGWSTDQGIG-FGEDQPTIKSQLMNLIRA-VRTVMRVPLIIINSIVIVYL 78 (82)
T ss_pred hCcCcccCcc-cCCCCccHHHHHHHHHHH-HHHHHhcchhhhhHHHHHHH
Confidence 5899999876 543 5667777766554 44444455555555555554
No 69
>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=23.85 E-value=1e+02 Score=24.06 Aligned_cols=29 Identities=24% Similarity=0.193 Sum_probs=21.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccccchh
Q 034421 55 VDIILIVTLVALILVYLIGCCAFRNDKTE 83 (95)
Q Consensus 55 ~ai~niv~lv~Li~vy~vGCca~rn~r~~ 83 (95)
-.++.|++-+.|.++.++..-|+-=.||.
T Consensus 270 ~~~vPIaVG~~La~lvlivLiaYli~Rrr 298 (306)
T PF01299_consen 270 SDLVPIAVGAALAGLVLIVLIAYLIGRRR 298 (306)
T ss_pred cchHHHHHHHHHHHHHHHHHHhheeEecc
Confidence 67777777777877777777777766663
No 70
>TIGR03647 Na_symport_sm probable solute:sodium symporter small subunit. Members of this family are highly hydrophobic bacterial proteins of about 90 amino acids in length. Members usually are found immediately upstream (sometimes fused to) a member of the solute:sodium symporter family, and therefore are a putative sodium:solute symporter small subunit. Members tend to be found in aquatic species, especially those from marine or other high salt environments.
Probab=23.60 E-value=96 Score=20.46 Aligned_cols=25 Identities=28% Similarity=0.369 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHHHHHHHhhccccccchhh
Q 034421 55 VDIILIVTLVALILVYLIGCCAFRNDKTED 84 (95)
Q Consensus 55 ~ai~niv~lv~Li~vy~vGCca~rn~r~~~ 84 (95)
++-..++++++||++|.. +-+|-|+
T Consensus 47 aaQGsi~~fviLi~~Ya~-----~m~rlD~ 71 (77)
T TIGR03647 47 AQQGSIYVFVVLIFVYAW-----RMNRLDR 71 (77)
T ss_pred HHhhHHHHHHHHHHHHHH-----HHHHHHH
Confidence 345567778888888876 4455544
No 71
>PHA02673 ORF109 EEV glycoprotein; Provisional
Probab=23.60 E-value=1.1e+02 Score=23.16 Aligned_cols=38 Identities=26% Similarity=0.474 Sum_probs=27.0
Q ss_pred hHHHHHHHhh----------hhHHHHHHHHHHHHHHHHHHHhhccccc
Q 034421 42 AGLLANLKKE----------WRRVDIILIVTLVALILVYLIGCCAFRN 79 (95)
Q Consensus 42 AGvl~~lk~~----------Wr~~ai~niv~lv~Li~vy~vGCca~rn 79 (95)
|++++.+|++ -|.++++.|++|++|+++.++-+..-++
T Consensus 16 ~~y~as~~r~k~~~R~i~l~~Ri~~~iSIisL~~l~v~LaL~l~~Ck~ 63 (161)
T PHA02673 16 ANYVASVKRQKAIRRYIKLFFRLMAAIAIIVLAILVVILALALDDCRN 63 (161)
T ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence 5566655554 4667888999999999888887754433
No 72
>PF07672 MFS_Mycoplasma: Mycoplasma MFS transporter; InterPro: IPR011699 These proteins share some similarity with members of the Major Facilitator Superfamily (MFS).
Probab=23.43 E-value=1.6e+02 Score=23.84 Aligned_cols=30 Identities=20% Similarity=0.583 Sum_probs=20.0
Q ss_pred HHHHHHHhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 43 GLLANLKKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 43 Gvl~~lk~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
++.+.++++|.-+.-+.+++.++..++|.+
T Consensus 31 ~~~~~~~~~W~~I~si~~lL~~IpLIly~i 60 (267)
T PF07672_consen 31 SVVIALTNNWQWILSIFILLIFIPLILYII 60 (267)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 466889999998876666655444444443
No 73
>PF08391 Ly49: Ly49-like protein, N-terminal region; InterPro: IPR013600 The sequences making up this entry are annotated as, or are similar to, Ly49 receptors (e.g. P20937 from SWISSPROT). These are type II transmembrane receptors expressed by mouse natural killer (NK) cells. They are classified as being activating (e.g.Ly49D and H) or inhibitory (e.g. Ly49A and G), depending on their effect on NK cell function []. They are members of the C-type lectin receptor superfamily [], and in fact in many family members this region is found immediately N-terminal to a lectin C-type domain (IPR001304 from INTERPRO). ; PDB: 1QO3_D 3C8J_D 1P4L_D 3C8K_D 3G8K_B 1JA3_B 3CAD_A 3G8L_A.
Probab=23.39 E-value=27 Score=24.95 Aligned_cols=28 Identities=32% Similarity=0.711 Sum_probs=0.0
Q ss_pred hhhHHHHHH-HHHHHHHHHHHHHhhcccc
Q 034421 51 EWRRVDIIL-IVTLVALILVYLIGCCAFR 78 (95)
Q Consensus 51 ~Wr~~ai~n-iv~lv~Li~vy~vGCca~r 78 (95)
-|+-+++.. |+.+++||.|-+.|=-.|-
T Consensus 3 pW~liav~LGILCllLLvtv~vL~t~ifQ 31 (119)
T PF08391_consen 3 PWRLIAVALGILCLLLLVTVAVLGTMIFQ 31 (119)
T ss_dssp -----------------------------
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 388777766 6677777777777754443
No 74
>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=23.17 E-value=32 Score=22.45 Aligned_cols=10 Identities=20% Similarity=0.105 Sum_probs=0.4
Q ss_pred hhccccccch
Q 034421 73 GCCAFRNDKT 82 (95)
Q Consensus 73 GCca~rn~r~ 82 (95)
....+|-.++
T Consensus 30 lf~iyR~rkk 39 (64)
T PF01034_consen 30 LFLIYRMRKK 39 (64)
T ss_dssp -------S--
T ss_pred HHHHHHHHhc
Confidence 3334443333
No 75
>PF03303 WTF: WTF protein; InterPro: IPR004982 This is a family of mainly hypothetical Schizosacchoromyces pombe proteins that are often encoded near long terminal repeats within the genome. Their function is unknown but they contain several predicted transmembrane regions and at least one protein is up-regulated during meiosis []. Upregulation is also observed in histone deacetylase mutants, indicating their transcription is normally inhibited by hypoacetylation [].
Probab=23.13 E-value=1.5e+02 Score=24.00 Aligned_cols=27 Identities=22% Similarity=0.525 Sum_probs=17.3
Q ss_pred chhhHHHHHHHhhhhHHHHHHHHHHHHH
Q 034421 39 SCKAGLLANLKKEWRRVDIILIVTLVAL 66 (95)
Q Consensus 39 SCKAGvl~~lk~~Wr~~ai~niv~lv~L 66 (95)
.|++| +.+.+++|.......-+++.+.
T Consensus 158 ~~~~G-i~~~~kk~~v~~~~~~~V~~~~ 184 (247)
T PF03303_consen 158 VCGKG-IKNFRKKWVVIIWLFWVVICFN 184 (247)
T ss_pred hhhhh-hhhHHHHHHHHHHHHHHHHHHH
Confidence 57777 4688999986654444444333
No 76
>PRK06193 hypothetical protein; Provisional
Probab=22.40 E-value=57 Score=24.82 Aligned_cols=41 Identities=15% Similarity=0.167 Sum_probs=21.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHhhccccccchhhhhhccccCCC
Q 034421 53 RRVDIILIVTLVALILVYLIGCCAFRNDKTEDLFRKYKQGTY 94 (95)
Q Consensus 53 r~~ai~niv~lv~Li~vy~vGCca~rn~r~~~~~~~~~~~~~ 94 (95)
|.+++.+++. ++++++-+-+=.+.--+-..+.+..|++|++
T Consensus 4 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~ 44 (206)
T PRK06193 4 RAMALLGALL-LILLGAGSGEEAASDEADDKTLLESLQKGGY 44 (206)
T ss_pred hHHHHHHHHH-HHHhccccccccccccccchHHHHHHhcCCE
Confidence 4566777666 4444443333332333333446677888775
No 77
>PF10658 DUF2484: Protein of unknown function (DUF2484); InterPro: IPR018919 A role of this family in UDP-N-acetylenolpyruvoylglucosamine reductase, as MurB, could not be confirmed.
Probab=21.84 E-value=1.1e+02 Score=20.62 Aligned_cols=33 Identities=21% Similarity=0.338 Sum_probs=23.0
Q ss_pred hhhhHHHHHHHHHHHHHH------------HHHHHhhccccccch
Q 034421 50 KEWRRVDIILIVTLVALI------------LVYLIGCCAFRNDKT 82 (95)
Q Consensus 50 ~~Wr~~ai~niv~lv~Li------------~vy~vGCca~rn~r~ 82 (95)
.+|+...+.-++...+|+ ++.+.|++.||+.-+
T Consensus 26 ~hw~~a~~Lia~g~pLlg~v~~~~Gp~~gl~~L~ag~S~lRwPv~ 70 (77)
T PF10658_consen 26 NHWRPAYVLIAAGIPLLGWVTYQNGPWWGLLVLAAGMSMLRWPVI 70 (77)
T ss_pred hcchhHHHHHHHHhhHhhhhHhhhChHHHHHHHHHHHHHHHhHHH
Confidence 789988776555544443 566788999998654
No 78
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.74 E-value=94 Score=25.85 Aligned_cols=23 Identities=26% Similarity=0.553 Sum_probs=18.3
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHH
Q 034421 50 KEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 50 ~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
+.|--+-||-|++++|||+|.+.
T Consensus 288 NRwLmvkiF~i~ivFflvfvlf~ 310 (311)
T KOG0812|consen 288 NRWLMVKIFGILIVFFLVFVLFL 310 (311)
T ss_pred chHHHHHHHHHHHHHHHHHHHhc
Confidence 45777788999999999888764
No 79
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=21.56 E-value=1.4e+02 Score=19.36 Aligned_cols=11 Identities=36% Similarity=1.005 Sum_probs=7.4
Q ss_pred HHhhhhHHHHH
Q 034421 48 LKKEWRRVDII 58 (95)
Q Consensus 48 lk~~Wr~~ai~ 58 (95)
++.+|+.+|-+
T Consensus 206 ~~~ew~~~A~v 216 (237)
T PF02932_consen 206 IKEEWKFVAMV 216 (237)
T ss_dssp HHHHHHSTSHH
T ss_pred ccccccccHHH
Confidence 56678877644
No 80
>KOG4517 consensus Uncharacterized conserved protein [Function unknown]
Probab=21.48 E-value=1.3e+02 Score=21.78 Aligned_cols=42 Identities=26% Similarity=0.506 Sum_probs=24.5
Q ss_pred ecCcchhhHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHhhccccccch
Q 034421 35 YNCDSCKAGLLANLKKEWRRVDIILIVTLVALILVYLIGCCAFRNDKT 82 (95)
Q Consensus 35 y~CdSCKAGvl~~lk~~Wr~~ai~niv~lv~Li~vy~vGCca~rn~r~ 82 (95)
-.|.+|.-||||+.+.. +.|+.. +++.=.=++-|-|.|..|-
T Consensus 68 ~~~P~~g~g~lEdtfta---lgi~~a---i~~fP~g~ic~~alr~rrc 109 (117)
T KOG4517|consen 68 GGCPGCGYGVLEDTFTA---LGIFLA---IILFPFGFICCFALRKRRC 109 (117)
T ss_pred cCCCccccchhhhHHHH---hhHHHH---HHHhhhHHHhhHhhhhccC
Confidence 36889999999986543 333333 3333233445667776553
No 81
>PF13129 DUF3953: Protein of unknown function (DUF3953)
Probab=21.42 E-value=38 Score=19.89 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=18.7
Q ss_pred HHHHHhhhhHHHHHHHHHHHHHHHH
Q 034421 45 LANLKKEWRRVDIILIVTLVALILV 69 (95)
Q Consensus 45 l~~lk~~Wr~~ai~niv~lv~Li~v 69 (95)
++++|++=+..+++.+++-++.++|
T Consensus 14 i~e~kk~~k~~g~~~f~~~~f~~~V 38 (42)
T PF13129_consen 14 IEEIKKERKSSGILSFLVGAFILFV 38 (42)
T ss_pred HHHHHhcccceehHHHHHHHHheEE
Confidence 4677888888888888887776554
No 82
>PF11395 DUF2873: Protein of unknown function (DUF2873); InterPro: IPR021532 This entry is represented by the human SARS coronavirus, Orf7b; it is a family of uncharacterised viral proteins.
Probab=21.16 E-value=1.5e+02 Score=17.83 Aligned_cols=16 Identities=19% Similarity=0.694 Sum_probs=7.1
Q ss_pred HHHHHHHHHHHHHHHH
Q 034421 56 DIILIVTLVALILVYL 71 (95)
Q Consensus 56 ai~niv~lv~Li~vy~ 71 (95)
+....++++.||+..+
T Consensus 15 ~~llflv~imliif~f 30 (43)
T PF11395_consen 15 SFLLFLVIIMLIIFWF 30 (43)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3334444445554443
No 83
>PF04272 Phospholamban: Phospholamban; InterPro: IPR005984 Phospholamban (PLB) is a small protein (52 amino acids) that regulates the affinity of the cardiac sarcoplasmic reticulum Ca2+-ATPase (SERCA2a) for calcium. PLB is present in cardiac myocytes, in slow-twitch and smooth muscle and is expressed also in aorta endothelial cells in which it could play a role in tissue relaxation. The phosphorylation/dephosphorylation of phospholamban removes and restores, respectively, its inhibitory activity on SERCA2a. It has in fact been shown that phospholamban, in its non-phosphorylated form, binds to SERCA2a and inhibits this pump by lowering its affinity for Ca2+, whereas the phosphorylated form does not exert the inhibition. PLB is phosphorylated at two sites, namely at Ser-16 for a cAMP-dependent phosphokinase and at Thr-17 for a Ca2+/calmodulin-dependent phosphokinase, phosphorylation at Ser-16 being a prerequisite for the phosphorylation at Thr-17. The structure of a 36-amino-acid-long N-terminal fragment of human phospholamban phosphorylated at Ser-16 and Thr-17 and Cys36Ser mutated was determined from nuclear magnetic resonance data. The peptide assumes a conformation characterised by two alpha-helices connected by an irregular strand, which comprises the amino acids from Arg-13 to Pro-21. The proline is in a trans conformation. The two phosphate groups on Ser-16 and Thr-17 are shown to interact preferably with the side chains of Arg-14 and Arg-13, respectively [].; GO: 0005246 calcium channel regulator activity, 0042030 ATPase inhibitor activity, 0006816 calcium ion transport, 0016020 membrane; PDB: 1N7L_A 1FJP_A 1FJK_A 2HYN_C 1ZLL_D 1PLP_A 3O7L_I.
Probab=21.12 E-value=2.2e+02 Score=17.83 Aligned_cols=23 Identities=30% Similarity=0.431 Sum_probs=10.7
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHH
Q 034421 48 LKKEWRRVDIILIVTLVALILVY 70 (95)
Q Consensus 48 lk~~Wr~~ai~niv~lv~Li~vy 70 (95)
+.+-.-.+-.+.|+++++.|+|.
T Consensus 28 lqelfvnfclilicllli~iiv~ 50 (52)
T PF04272_consen 28 LQELFVNFCLILICLLLICIIVM 50 (52)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333344445555555555543
No 84
>PF08437 Glyco_transf_8C: Glycosyl transferase family 8 C-terminal; InterPro: IPR013645 This domain is found at the C terminus of bacterial glucosyltransferase and galactosyltransferase proteins. ; GO: 0008918 lipopolysaccharide 3-alpha-galactosyltransferase activity, 0009103 lipopolysaccharide biosynthetic process
Probab=20.89 E-value=47 Score=20.52 Aligned_cols=20 Identities=35% Similarity=0.529 Sum_probs=11.6
Q ss_pred cccHHHHhhcCCCCceeeeCCC
Q 034421 9 YTMAQDFFNAHDITPLQWGNDQ 30 (95)
Q Consensus 9 ~~t~~~f~~~~~LSPi~WsNd~ 30 (95)
|++++-|..+...|| |+|.+
T Consensus 1 Yp~~~~F~~a~~~SP--Wk~~p 20 (57)
T PF08437_consen 1 YPSAQYFRKAYKNSP--WKDIP 20 (57)
T ss_pred CcchHHHHHHHHcCC--CCCCC
Confidence 345556666643666 67665
No 85
>PF09777 OSTMP1: Osteopetrosis-associated transmembrane protein 1 precursor; InterPro: IPR019172 Osteopetrosis-associated transmembrane protein 1 (OSTM1) is required for osteoclast and melanocyte maturation and function. Mutations in OSTM1 give rise to autosomal recessive osteopetrosis, also called autosomal recessive Albers-Schonberg disease [, ].
Probab=20.75 E-value=2e+02 Score=22.26 Aligned_cols=20 Identities=25% Similarity=0.346 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 034421 55 VDIILIVTLVALILVYLIGC 74 (95)
Q Consensus 55 ~ai~niv~lv~Li~vy~vGC 74 (95)
+..+.++++++.|++|+..-
T Consensus 192 ~i~v~~~vl~lpv~FY~~s~ 211 (237)
T PF09777_consen 192 VIAVSVFVLFLPVLFYLSSY 211 (237)
T ss_pred HHHHHHHHHHHHHHHHHhhe
Confidence 44555556666677777643
No 86
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=20.69 E-value=33 Score=23.99 Aligned_cols=25 Identities=20% Similarity=0.490 Sum_probs=0.0
Q ss_pred HHhhhhHHHHHHHHHHHHHHHHHHH
Q 034421 48 LKKEWRRVDIILIVTLVALILVYLI 72 (95)
Q Consensus 48 lk~~Wr~~ai~niv~lv~Li~vy~v 72 (95)
|++..+++.++-+.++++.++++++
T Consensus 1 ~~~~~~rl~~~~~~~~~i~~~~~l~ 25 (131)
T PF03100_consen 1 MKRRKKRLILVVLGLVIIAAAIYLI 25 (131)
T ss_dssp -------------------------
T ss_pred CCcceeehhhHHHHHHHHHHHHHHH
Confidence 4566666665555554444444443
No 87
>PTZ00448 hypothetical protein; Provisional
Probab=20.47 E-value=48 Score=28.06 Aligned_cols=24 Identities=21% Similarity=0.642 Sum_probs=18.2
Q ss_pred eecCcchhhHHH------HHHHhhhhHHHH
Q 034421 34 CYNCDSCKAGLL------ANLKKEWRRVDI 57 (95)
Q Consensus 34 Cy~CdSCKAGvl------~~lk~~Wr~~ai 57 (95)
=|.|.+|...|- +++|++|++.++
T Consensus 314 ~~tC~~C~v~F~~~~~qR~H~KSDwHrYNL 343 (373)
T PTZ00448 314 MLLCRKCNIQLMDHNAFKQHYRSEWHIFNT 343 (373)
T ss_pred CccccccccccCCHHHHHHHhhhhHHHHHH
Confidence 477999987763 578999998653
No 88
>PF10601 zf-LITAF-like: LITAF-like zinc ribbon domain; InterPro: IPR006629 Members of this family display a conserved zinc ribbon structure [] with the motif C-XX-C- separated from the more C-terminal HX-C(P)X-C-X4-G-R motif by a variable region of usually 25-30 (hydrophobic) residues. Although it belongs to one of the zinc finger's fold groups (zinc ribbon), this particular domain was first identified in LPS-induced tumour necrosis alpha factor (LITAF) which is produced in mammalian cells after being challenged with lipopolysaccharide (LPS). The hydrophobic region probably inserts into the membrane rather than traversing it. Such an insertion brings together the N- and C-terminal C-XX-C motifs to form a compact Zn2+-binding structure [].
Probab=20.46 E-value=19 Score=22.55 Aligned_cols=30 Identities=13% Similarity=0.248 Sum_probs=19.0
Q ss_pred cCcchhhHHHHHHHhhhhHHHHHHHHHHHH
Q 034421 36 NCDSCKAGLLANLKKEWRRVDIILIVTLVA 65 (95)
Q Consensus 36 ~CdSCKAGvl~~lk~~Wr~~ai~niv~lv~ 65 (95)
.|.+|+.-+.-.++.+-...+.+..+++.+
T Consensus 9 ~CP~C~~~~~T~v~~~~g~~t~~~~~~l~~ 38 (73)
T PF10601_consen 9 YCPYCQQQVQTRVEYKSGTMTYICAALLCL 38 (73)
T ss_pred ECCCCCCEEEEEEEEEeChHHHHHHHHHHH
Confidence 577777777777777666666544444333
No 89
>COG5605 Predicted small integral membrane protein [Function unknown]
Probab=20.21 E-value=2.4e+02 Score=20.18 Aligned_cols=23 Identities=30% Similarity=0.730 Sum_probs=16.4
Q ss_pred hhHHHH--HHHhhhhHHHHHHHHHH
Q 034421 41 KAGLLA--NLKKEWRRVDIILIVTL 63 (95)
Q Consensus 41 KAGvl~--~lk~~Wr~~ai~niv~l 63 (95)
|||++- -+.-.|.+++.+-.+++
T Consensus 60 kaglivavfmhmawerlal~yaiil 84 (115)
T COG5605 60 KAGLIVAVFMHMAWERLALVYAIIL 84 (115)
T ss_pred HccHHHHHHHHHHHHHHHHHHHHHh
Confidence 777654 45678999987766554
No 90
>PHA03283 envelope glycoprotein E; Provisional
Probab=20.02 E-value=1e+02 Score=27.45 Aligned_cols=32 Identities=19% Similarity=0.411 Sum_probs=21.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHhhccc-cccc
Q 034421 50 KEWRRVDIILIVTLVALILVYLIGCCAF-RNDK 81 (95)
Q Consensus 50 ~~Wr~~ai~niv~lv~Li~vy~vGCca~-rn~r 81 (95)
+.|.++..+.+.+..++++..++.||+. |..+
T Consensus 397 ~~~l~~~~~~~~~~~~~~~~l~vw~c~~~r~~~ 429 (542)
T PHA03283 397 RHYLAFLLAIICTCAALLVALVVWGCILYRRSN 429 (542)
T ss_pred cccchhHHHHHHHHHHHHHHHhhhheeeehhhc
Confidence 5677666666666666677777777776 5444
Done!