Query 012361
Match_columns 465
No_of_seqs 122 out of 137
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 01:50:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012361.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012361hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd07912 Tweety_N N-terminal do 100.0 2.3E-38 5E-43 330.1 30.5 354 2-431 28-406 (418)
2 PF04906 Tweety: Tweety; Inte 99.9 6.6E-26 1.4E-30 237.2 23.2 353 2-431 8-383 (406)
3 KOG4433 Tweety transmembrane/c 99.9 1.9E-20 4.1E-25 194.5 25.6 354 2-431 32-407 (526)
4 PF05478 Prominin: Prominin; 98.5 0.00017 3.7E-09 82.5 30.2 95 20-114 92-197 (806)
5 cd07912 Tweety_N N-terminal do 96.8 0.06 1.3E-06 57.5 17.3 171 31-210 56-259 (418)
6 KOG4331 Polytopic membrane pro 96.6 0.0094 2E-07 67.3 9.6 70 360-431 741-811 (865)
7 PF04906 Tweety: Tweety; Inte 95.2 4.4 9.5E-05 43.3 21.9 110 156-276 181-301 (406)
8 PF05478 Prominin: Prominin; 93.6 1.8 4E-05 50.0 15.9 53 379-431 738-790 (806)
9 KOG4433 Tweety transmembrane/c 87.0 21 0.00046 39.0 15.2 113 31-166 54-168 (526)
10 PF00957 Synaptobrevin: Synapt 86.8 6.4 0.00014 32.6 9.1 24 131-154 30-56 (89)
11 PF03904 DUF334: Domain of unk 83.6 34 0.00074 34.0 13.6 22 95-116 62-83 (230)
12 KOG2348 Urea transporter [Amin 80.5 1.9 4.2E-05 46.8 4.2 72 143-220 535-607 (667)
13 PF15099 PIRT: Phosphoinositid 76.3 0.85 1.9E-05 41.1 0.1 41 408-450 80-123 (129)
14 COG5336 Uncharacterized protei 74.3 27 0.00058 31.1 8.7 72 134-206 13-87 (116)
15 COG1823 Predicted Na+/dicarbox 73.8 1.4E+02 0.0029 32.3 17.2 82 140-221 196-285 (458)
16 PF04156 IncA: IncA protein; 70.8 29 0.00063 32.5 9.0 41 179-219 20-60 (191)
17 PF07889 DUF1664: Protein of u 69.7 44 0.00096 30.3 9.4 51 82-142 28-78 (126)
18 PF03908 Sec20: Sec20; InterP 69.6 63 0.0014 27.1 9.9 20 96-115 21-40 (92)
19 KOG0860 Synaptobrevin/VAMP-lik 68.5 64 0.0014 28.9 9.9 16 139-154 67-82 (116)
20 COG4768 Uncharacterized protei 66.5 77 0.0017 29.2 10.2 25 86-110 27-51 (139)
21 PF00957 Synaptobrevin: Synapt 65.9 53 0.0011 27.1 8.6 23 139-161 34-59 (89)
22 TIGR00383 corA magnesium Mg(2+ 62.6 1.2E+02 0.0025 30.7 12.1 19 169-187 260-278 (318)
23 COG4987 CydC ABC-type transpor 60.1 2.9E+02 0.0064 31.1 15.4 60 56-115 14-79 (573)
24 PF05957 DUF883: Bacterial pro 59.9 1E+02 0.0022 25.8 10.5 31 131-161 37-67 (94)
25 PF07662 Nucleos_tra2_C: Na+ d 54.0 97 0.0021 30.5 9.3 53 161-213 50-108 (210)
26 KOG4331 Polytopic membrane pro 51.3 2E+02 0.0044 33.7 12.5 77 38-114 126-210 (865)
27 PF12732 YtxH: YtxH-like prote 50.1 96 0.0021 24.9 7.4 45 65-112 4-48 (74)
28 PTZ00358 hypothetical protein; 50.0 31 0.00067 36.3 5.4 61 19-82 108-172 (367)
29 COG4768 Uncharacterized protei 46.5 1.8E+02 0.004 26.8 9.1 17 139-155 90-106 (139)
30 PF00558 Vpu: Vpu protein; In 46.4 13 0.00027 31.3 1.6 20 413-432 7-26 (81)
31 PF13908 Shisa: Wnt and FGF in 46.3 10 0.00023 35.5 1.3 8 38-45 97-104 (179)
32 KOG3882 Tetraspanin family int 46.2 63 0.0014 31.2 6.8 37 168-204 54-90 (237)
33 COG0598 CorA Mg2+ and Co2+ tra 46.0 1.7E+02 0.0037 30.0 10.3 18 171-191 266-283 (322)
34 PF11884 DUF3404: Domain of un 45.1 15 0.00033 37.2 2.3 44 398-441 218-261 (262)
35 PF05545 FixQ: Cbb3-type cytoc 44.9 34 0.00074 25.4 3.7 18 415-432 14-31 (49)
36 PF11239 DUF3040: Protein of u 44.9 90 0.0019 25.7 6.5 27 128-154 5-31 (82)
37 PF06103 DUF948: Bacterial pro 44.6 1.8E+02 0.0039 24.0 10.7 17 61-77 5-21 (90)
38 PF14979 TMEM52: Transmembrane 44.5 28 0.00061 32.4 3.7 34 10-45 16-49 (154)
39 PF06084 Cytomega_TRL10: Cytom 44.2 11 0.00024 33.7 1.1 33 408-440 56-88 (150)
40 PF11169 DUF2956: Protein of u 44.1 20 0.00044 31.3 2.6 19 201-219 84-102 (103)
41 PRK09546 zntB zinc transporter 44.1 2.8E+02 0.006 28.3 11.5 18 171-191 268-285 (324)
42 PRK10404 hypothetical protein; 43.2 2.2E+02 0.0048 24.7 9.6 21 134-154 47-67 (101)
43 PF12725 DUF3810: Protein of u 41.6 1.5E+02 0.0033 30.7 9.1 26 388-416 291-316 (318)
44 PF11657 Activator-TraM: Trans 40.7 3E+02 0.0066 25.5 10.4 13 171-183 125-137 (144)
45 COG4980 GvpP Gas vesicle prote 38.9 2.2E+02 0.0047 25.6 8.3 28 64-91 9-36 (115)
46 PF04210 MtrG: Tetrahydrometha 38.4 2.1E+02 0.0045 23.6 7.3 23 130-152 17-39 (70)
47 PF02038 ATP1G1_PLM_MAT8: ATP1 38.1 18 0.00039 27.7 1.3 28 10-41 11-38 (50)
48 KOG0811 SNARE protein PEP12/VA 38.0 1.3E+02 0.0028 30.7 7.7 17 132-148 208-224 (269)
49 PF10873 DUF2668: Protein of u 37.7 20 0.00042 33.4 1.6 33 9-43 53-86 (155)
50 PF11887 DUF3407: Protein of u 36.8 2.7E+02 0.0059 28.0 9.9 36 131-166 93-128 (267)
51 PF03623 Focal_AT: Focal adhes 36.7 2.5E+02 0.0054 26.0 8.6 73 81-154 8-90 (139)
52 PF11166 DUF2951: Protein of u 34.2 3.2E+02 0.0068 23.8 10.4 20 131-150 34-53 (98)
53 PLN03094 Substrate binding sub 33.1 1.3E+02 0.0028 32.0 7.1 66 100-166 289-366 (370)
54 PF07043 DUF1328: Protein of u 33.0 55 0.0012 23.9 3.0 25 12-37 12-36 (39)
55 PF11241 DUF3043: Protein of u 32.8 1.7E+02 0.0037 27.9 7.1 24 196-219 100-123 (170)
56 PF12191 stn_TNFRSF12A: Tumour 31.9 15 0.00033 33.3 0.0 31 414-444 82-112 (129)
57 KOG2662 Magnesium transporters 31.7 3E+02 0.0064 29.9 9.4 22 171-192 350-371 (414)
58 PF03172 Sp100: Sp100 domain; 31.3 23 0.0005 31.1 1.0 59 367-425 15-73 (103)
59 PF14235 DUF4337: Domain of un 30.6 4.5E+02 0.0098 24.5 15.9 36 127-162 68-106 (157)
60 PRK01919 tatB sec-independent 30.5 3.4E+02 0.0073 26.0 8.6 33 133-165 58-90 (169)
61 PF06687 SUR7: SUR7/PalI famil 30.4 4.6E+02 0.01 24.5 10.4 36 146-182 97-132 (212)
62 PRK01026 tetrahydromethanopter 30.2 3.3E+02 0.0071 22.8 7.8 25 130-154 20-44 (77)
63 KOG3882 Tetraspanin family int 29.7 1.6E+02 0.0034 28.4 6.7 43 51-93 77-120 (237)
64 TIGR01149 mtrG N5-methyltetrah 29.4 3.2E+02 0.007 22.4 7.4 25 130-154 17-41 (70)
65 PRK11281 hypothetical protein; 29.4 6.9E+02 0.015 30.6 13.0 49 156-207 681-731 (1113)
66 PF13829 DUF4191: Domain of un 29.4 2.7E+02 0.0058 27.8 8.1 16 319-334 165-180 (224)
67 COG4575 ElaB Uncharacterized c 28.6 2.7E+02 0.0059 24.5 7.1 17 100-116 11-27 (104)
68 PF07344 Amastin: Amastin surf 28.2 3.8E+02 0.0082 24.6 8.5 34 191-229 92-125 (155)
69 PF11023 DUF2614: Protein of u 27.3 3.2E+02 0.007 24.5 7.4 26 193-221 36-61 (114)
70 PF07062 Clc-like: Clc-like; 27.2 3.5E+02 0.0077 26.6 8.5 56 168-223 105-162 (211)
71 PF07204 Orthoreo_P10: Orthore 27.1 59 0.0013 28.2 2.7 11 15-25 38-48 (98)
72 PRK13726 conjugal transfer pil 26.9 2.1E+02 0.0046 27.5 6.8 38 54-91 11-48 (188)
73 PRK08578 preprotein translocas 26.8 4.2E+02 0.0092 27.0 9.4 20 53-72 10-29 (292)
74 PF11166 DUF2951: Protein of u 26.7 4E+02 0.0087 23.2 7.6 9 153-161 63-71 (98)
75 PF10498 IFT57: Intra-flagella 26.7 1.5E+02 0.0033 31.3 6.3 85 82-167 244-341 (359)
76 PRK02935 hypothetical protein; 26.6 4.6E+02 0.0099 23.3 8.6 28 193-223 37-64 (110)
77 PF10267 Tmemb_cc2: Predicted 26.5 4.6E+02 0.0099 28.3 9.8 9 203-211 381-389 (395)
78 PF10233 Cg6151-P: Uncharacter 26.3 1.8E+02 0.004 25.9 5.8 32 16-47 19-52 (113)
79 PF06749 DUF1218: Protein of u 26.2 1.6E+02 0.0035 25.1 5.3 31 58-88 36-66 (97)
80 TIGR03141 cytochro_ccmD heme e 26.0 46 0.001 24.6 1.7 33 407-440 4-36 (45)
81 PF01442 Apolipoprotein: Apoli 25.4 3.9E+02 0.0084 24.0 8.1 24 137-160 72-95 (202)
82 PF13244 DUF4040: Domain of un 25.3 37 0.0008 27.5 1.1 27 4-30 12-38 (70)
83 PRK11677 hypothetical protein; 24.7 5.5E+02 0.012 23.5 8.8 25 59-83 3-27 (134)
84 PF02203 TarH: Tar ligand bind 24.3 1.8E+02 0.004 25.9 5.7 28 64-91 16-43 (171)
85 PF05393 Hum_adeno_E3A: Human 23.8 90 0.0019 26.8 3.2 28 415-442 37-66 (94)
86 PLN03223 Polycystin cation cha 23.2 4.4E+02 0.0096 33.1 9.7 31 208-238 1399-1429(1634)
87 COG2443 Sss1 Preprotein transl 23.2 3.4E+02 0.0075 22.0 6.2 39 149-187 8-54 (65)
88 PF13908 Shisa: Wnt and FGF in 23.1 46 0.001 31.2 1.5 30 16-45 78-107 (179)
89 PF12729 4HB_MCP_1: Four helix 22.9 5E+02 0.011 22.4 8.7 17 75-91 24-40 (181)
90 PHA02047 phage lambda Rz1-like 22.8 3.7E+02 0.008 23.5 6.7 31 103-140 33-63 (101)
91 COG2177 FtsX Cell division pro 22.6 8.6E+02 0.019 25.1 15.1 27 155-181 155-181 (297)
92 KOG3202 SNARE protein TLG1/Syn 22.4 5.5E+02 0.012 25.8 8.9 23 140-162 184-206 (235)
93 PF10854 DUF2649: Protein of u 22.4 1.1E+02 0.0024 24.5 3.2 29 1-31 29-57 (67)
94 COG5130 YIP3 Prenylated rab ac 22.2 6.6E+02 0.014 23.6 10.3 17 177-193 81-98 (169)
95 TIGR00996 Mtu_fam_mce virulenc 22.0 6.2E+02 0.014 25.1 9.5 28 139-166 237-264 (291)
96 COG3162 Predicted membrane pro 21.9 5.5E+02 0.012 22.6 7.7 27 196-222 60-86 (102)
97 COG5505 Predicted integral mem 21.8 7.8E+02 0.017 26.1 10.0 44 179-222 252-312 (384)
98 PF05915 DUF872: Eukaryotic pr 21.8 1.9E+02 0.0042 25.7 5.1 34 402-435 35-68 (115)
99 PRK11085 magnesium/nickel/coba 21.7 9.1E+02 0.02 25.0 12.5 19 170-191 259-277 (316)
100 PRK13022 secF preprotein trans 21.4 5.1E+02 0.011 26.4 8.8 9 102-110 54-62 (289)
101 PRK08541 flagellin; Validated 21.0 1.2E+02 0.0025 30.0 3.8 36 59-94 10-45 (211)
102 PRK02110 disulfide bond format 20.9 2E+02 0.0043 27.0 5.3 6 244-249 116-121 (169)
103 KOG1241 Karyopherin (importin) 20.7 1.4E+03 0.031 27.0 14.7 148 83-233 516-672 (859)
104 PF00335 Tetraspannin: Tetrasp 20.6 42 0.0009 30.5 0.6 42 169-210 48-89 (221)
105 COG4794 EscS Type III secretor 20.0 5.7E+02 0.012 22.0 7.7 50 167-216 15-73 (89)
No 1
>cd07912 Tweety_N N-terminal domain of the protein encoded by the Drosophila tweety gene and related proteins, a family of chloride ion channels. The protein product of the Drosophila tweety (tty) gene is thought to form a trans-membrane protein with five membrane-spanning regions and a cytoplasmic C-terminus. This N-terminal domain contains the putative transmembrane spanning regions. Tweety has been suggested as a candidate for a large conductance chloride channel, both in vertebrate and insect cells. Three human homologs have been identified and designated TTYH1-3. TTYH2 has been associated with the progression of cancer, and Drosophila melanogaster tweety has been assumed to play a role in development. TTYH2, and TTYH3 bind to and are ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase, which most likely plays a role in controlling the cellular levels of tweety family proteins.
Probab=100.00 E-value=2.3e-38 Score=330.09 Aligned_cols=354 Identities=18% Similarity=0.227 Sum_probs=245.8
Q ss_pred CcCCccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhCCcccCC---CCC-CchhHHHHHHHHHHHHHHHHHHHHhh
Q 012361 2 YLIFSSLCMQSVGFTGASAFILAVIWFISFGLVLVAHHCCGWRINIK---GKE-SASSQRICLILLIVFTCAAAIGCILL 77 (465)
Q Consensus 2 ~~i~~~hYwaSv~fTg~pgf~iA~~Wfi~fGl~l~~~~cc~~~~~~~---~~~-S~~~~~~slillilft~~ai~gc~vl 77 (465)
++|.||||||||+||| ++|++||+++|+++++++||+|||+++ +++ |..++.++++++++|+++++++ +
T Consensus 28 F~p~~~~Y~~Sv~~~a----~iaavwlil~ll~ll~~~~~~CCcr~~~~~~k~~s~~c~~~sLiiltL~~~aaIi~---~ 100 (418)
T cd07912 28 FNPEDEIYQQSLLILA----SIPAACLILSLLFLLVYLITRCCDRKPTEERPRHSICCLKWSLVIATLLCCAAIGV---G 100 (418)
T ss_pred CCCCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhccCCCCCCCCCCCCccHHHHHHHHHHHHHHHHHHH---H
Confidence 6899999999999999 599999998998888765554445443 333 6689999999999999988866 8
Q ss_pred hcccchhhhhhhhhhhHHhccchHHHHHHHHHHHHHHhhhhhcccc-------cc-cC---chhhhhHHHHHHHHHHHHH
Q 012361 78 SVGQDEFHGEAMHTLKYVVNQSDYTVKTLRNVTEYLSLAKTINVAQ-------VF-LP---SAVMDDIDKLNRDLSTAAN 146 (465)
Q Consensus 78 ~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrnvt~~L~~ak~~~v~~-------~~-lP---~~~~~~id~l~~~Lns~A~ 146 (465)
|+||++||++++++.+++ +++|+++++++|++++++++-+..+++ ++ -| .|-.+.+..+++++.+.++
T Consensus 101 f~GN~~~h~gV~~t~~si-~~an~tv~~l~nqv~~l~~al~~t~~~~L~~L~~il~~~~~~~~~~~~~~~~q~~~~n~~~ 179 (418)
T cd07912 101 LYGNDETHDGVVQLTYSL-RNANHTVAGIDNQTSDTEASLNVTVEPQLTNLEDIFDARVNKTDYLQIVQGLQQMATNAAQ 179 (418)
T ss_pred hhccHHHhhhHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhhhhhhHhHHHHHhCCCcchhhHHHHHHHHHHHHHHHHH
Confidence 999999999999999999 899999999999999999876555531 11 13 1222233334444444444
Q ss_pred HHHHH-----hhhhHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHhhc-hhhHHHHHHHHHHHHHHHHHHHHHH
Q 012361 147 TLADK-----TSENSAKIRKVFNAVRS----ALITVAALMLLLSIIGLFLSILR-HKHAIHIFILSGWLLVAITFILCGV 216 (465)
Q Consensus 147 ~i~~k-----~~~n~~~I~~~l~~v~~----~liiva~vml~l~~~glv~~~~~-~~~~~~~~~~~gwilv~~twil~G~ 216 (465)
++.+- ...|...|.+-.+.++. +.+.+..+.++++++++ +|+.+ .|+.+++|+++|.+.++++|++.|+
T Consensus 180 ~~~~~~~~~~~~~~l~~i~~~~~~~E~~Rw~~~l~lL~~~lviC~~~l-~gl~r~Sr~~li~~s~~g~l~l~~~W~~~~~ 258 (418)
T cd07912 180 QLTGIPFWSLVGVSLTKLADQVSLYESYRWLAYLGLLSLLLVICLVLL-VGLARHSRCLLIVFSVCGLFALIISWLSLGL 258 (418)
T ss_pred HHhccccccccCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhcchHHHHHHHHHHHHHHHHHHHHHH
Confidence 43222 23344445444443332 12333334445555554 55544 7899999999999999999999999
Q ss_pred HHHHHhhhhhhhHhhHhhhcCCCCCCcccccccCCcccchhhHHHHhHHHHHHHHHHHhHHHHHhhhcCCCCCccccccc
Q 012361 217 FVILNNAISDTCMAMDEWVDHPHAETALSNILPCVDQRTTNKSLIQSKEVITDIVNVVNQFVYNIANANPSQDYIYYYNQ 296 (465)
Q Consensus 217 ~l~l~~~~~DtC~Am~e~~~~p~~~T~L~~iLPCvd~~~a~~~L~~~ke~i~~lv~~vN~~i~~i~n~n~~~~~~~yynq 296 (465)
|++.+++++|.|.++|+|+.+.+..+ ++ | ....||.+
T Consensus 259 ~l~~~v~~sDfC~~pd~yi~~~~~~~-~~---~---------------------------------------di~~yy~~ 295 (418)
T cd07912 259 YLASAVALSDFCVDPDDYVRNQTPSG-LS---S---------------------------------------DILQYYLT 295 (418)
T ss_pred HHHHHHhhhhhhcCHHHHHHhccccc-cc---h---------------------------------------HHHHHHhc
Confidence 99999999999999999999886422 11 0 01247888
Q ss_pred CCCCCCCCCCCCCCCcccccCCCccccccchhhccccceeecCCCCCCCcccccCCCccchhhHHHHHHHHHHHHHHHhh
Q 012361 297 TGPVMPPLCYPYDSQLQDRQCGSYEVSIANASKVWQNYTCELSTSGSSAFGRCNSVGRVTPYFYKELVSAVTEIYALQLY 376 (465)
Q Consensus 297 sgp~~p~lCnPf~~~~~~~~C~~gev~i~na~~v~~~~~C~~~~~~~~~~~~C~t~gr~tp~~y~q~~a~~n~~~~L~~~ 376 (465)
+.+.. -|||...++..+ ..+.|..+.++...=..-. .+.+.+ + ...++..-.|+....
T Consensus 296 C~~~~---~npF~~~l~~~~-----~~l~~~~~~~~~~~~~~~~-------~~~~~~---~-~l~~~~~~ln~~e~~--- 353 (418)
T cd07912 296 CEPST---TNPFQQRLTESQ-----RALTNMQSQVQGLLREAVF-------EFPTAE---D-NLLSLQGDLNSTEIN--- 353 (418)
T ss_pred CCCCC---CCcchHhhHHHH-----HHHHHHHHHHHHHHHHhcc-------cCCccc---c-hHHHHHHHHHHHHHH---
Confidence 87763 689988775432 2333443333221101100 111111 1 134455556665555
Q ss_pred hcccccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 377 TPRLLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWIL 431 (465)
Q Consensus 377 ~P~l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~ 431 (465)
.-.|+.++||.-+++-+.+.....|.+-..++-.+ .+..+.+|.++++++|+.
T Consensus 354 l~~l~a~ldCr~~h~~Y~~a~~g~C~~gl~Gl~~~--~l~s~~~a~~~~~lv~~~ 406 (418)
T cd07912 354 LHQLTALLDCRGLHKDYVEALRGLCYDGLEGLLYL--LLFSLLAALLFTILVCVD 406 (418)
T ss_pred HHHHHhhcchHHHHHHHHHHHHccccchHHHHHHH--HHHHHHHHHHHHHHHHhc
Confidence 44889999999999999999999999977766544 788888889999999877
No 2
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=99.94 E-value=6.6e-26 Score=237.20 Aligned_cols=353 Identities=16% Similarity=0.229 Sum_probs=220.8
Q ss_pred CcCCccchhhhhhhhhhhHHHHHHHHHHHHHHHHHH---HHHhCCcccCCCCCCc---hhHHHHHHHHHHHHHHHHHHHH
Q 012361 2 YLIFSSLCMQSVGFTGASAFILAVIWFISFGLVLVA---HHCCGWRINIKGKESA---SSQRICLILLIVFTCAAAIGCI 75 (465)
Q Consensus 2 ~~i~~~hYwaSv~fTg~pgf~iA~~Wfi~fGl~l~~---~~cc~~~~~~~~~~S~---~~~~~slillilft~~ai~gc~ 75 (465)
++|.|+.|-+|++|.| ++|++|++..-+++++ ++|||++. ++++++ .+..+++++..+.+++|| +
T Consensus 8 F~p~~~~Y~qsL~~la----~v~~~~l~l~Ll~ll~yl~~~CC~r~~--~~~~~~~~~~c~~~~~~ia~lvc~aai---g 78 (406)
T PF04906_consen 8 FNPQDEEYQQSLLILA----SVAAACLALSLLFLLIYLICRCCCRRP--REEKSSRRCCCLTWSLVIATLVCCAAI---G 78 (406)
T ss_pred CCCCCHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHhhCCCC--CccccccCCcchHHHHHHHHHHHHHHH---H
Confidence 6899999999999999 8899998753333333 23333321 122232 366788877777776666 7
Q ss_pred hhhcccchhhhhhhhhhhHHhccchHHHHHHHHHHHHHHhhhhhccc-------ccc-cCchhhhhHHHHHHHHHHHHHH
Q 012361 76 LLSVGQDEFHGEAMHTLKYVVNQSDYTVKTLRNVTEYLSLAKTINVA-------QVF-LPSAVMDDIDKLNRDLSTAANT 147 (465)
Q Consensus 76 vl~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrnvt~~L~~ak~~~v~-------~~~-lP~~~~~~id~l~~~Lns~A~~ 147 (465)
++++||++.|++..+.. +-.+.++.++..+++.++..+......+. .++ .|.+..+.+.++++.+.+.+++
T Consensus 79 vG~yGN~e~~~gv~~~~-~s~~~~n~t~~~i~~~v~~~~~~l~~~v~~~l~~Le~~~~~~~~~~~~~~~~~~~~~~v~~~ 157 (406)
T PF04906_consen 79 VGFYGNSETNDGVYQLI-YSLRNANHTLSGIDNLVSDTTEALNSTVEQHLTRLEEIFAKRTDLLQALQFLQQQAENVVQQ 157 (406)
T ss_pred cccccchhhhccHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHH
Confidence 88999999999976643 34555666666666665544432222221 112 3445555555555544444444
Q ss_pred HHHH-----hhhhHHHHHHHHHHH---HH-HHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 148 LADK-----TSENSAKIRKVFNAV---RS-ALITVAALMLLLSIIGLFLSILRHKHAIHIFILSGWLLVAITFILCGVFV 218 (465)
Q Consensus 148 i~~k-----~~~n~~~I~~~l~~v---~~-~liiva~vml~l~~~glv~~~~~~~~~~~~~~~~gwilv~~twil~G~~l 218 (465)
+++- ...+...+.+-.+.+ |. +.+.+..+++++++++++--..+.|+.++.+.++|++.++++|++.|+++
T Consensus 158 l~~l~~~~~~~~~l~~~~~~~~~~E~yRw~~~~~lL~l~l~icl~~l~glar~Sk~~li~~~v~gll~lvisW~~~g~~l 237 (406)
T PF04906_consen 158 LDELPFWRNVSLSLEQLAEQVSFYEYYRWLAYLGLLILDLVICLLGLLGLARQSKCLLIVFSVLGLLALVISWISLGLEL 237 (406)
T ss_pred HhcCcccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcceEEEeeeccHHHHHHHHHHHHHHH
Confidence 4222 111222333333322 32 23444455666666654443445788999999999999999999999999
Q ss_pred HHHhhhhhhhHhhHhhhcCCCCCCcccccccCCcccchhhHHHHhHHHHHHHHHHHhHHHHHhhhcCCCCCcccccccCC
Q 012361 219 ILNNAISDTCMAMDEWVDHPHAETALSNILPCVDQRTTNKSLIQSKEVITDIVNVVNQFVYNIANANPSQDYIYYYNQTG 298 (465)
Q Consensus 219 ~l~~~~~DtC~Am~e~~~~p~~~T~L~~iLPCvd~~~a~~~L~~~ke~i~~lv~~vN~~i~~i~n~n~~~~~~~yynqsg 298 (465)
+..++++|+|+++++|+.+-+.+....| .-.||..++
T Consensus 238 a~aV~~SDFC~~Pd~~i~~~~~~~~~~d-------------------------------------------i~~YYl~C~ 274 (406)
T PF04906_consen 238 AAAVGLSDFCVDPDTYILNQTQNETSAD-------------------------------------------ILQYYLTCS 274 (406)
T ss_pred HhccchhhhccCHHHHHHHhcccccchh-------------------------------------------HHHHhhcCC
Confidence 9999999999999999988765431111 114888888
Q ss_pred CCCCCCCCCCCCCcccccCCCccccccchhhccccceeecCCCCCCCcccccCCCccchhhHHHHHHHHHHHHHHHhhhc
Q 012361 299 PVMPPLCYPYDSQLQDRQCGSYEVSIANASKVWQNYTCELSTSGSSAFGRCNSVGRVTPYFYKELVSAVTEIYALQLYTP 378 (465)
Q Consensus 299 p~~p~lCnPf~~~~~~~~C~~gev~i~na~~v~~~~~C~~~~~~~~~~~~C~t~gr~tp~~y~q~~a~~n~~~~L~~~~P 378 (465)
+..+ |||...++.-+ -.+.++...+....-...+ .+.+.+ +.-.++....|+....++
T Consensus 275 ~~~~---nPFqq~l~~~~-----~al~~~q~~~~~L~~~a~~-------~fp~~~----~~l~~i~~~Ln~~e~~l~--- 332 (406)
T PF04906_consen 275 QSVS---NPFQQRLTSSQ-----RALSNMQSQVQGLLREAVP-------LFPTAQ----EPLLAIQEDLNSTERSLH--- 332 (406)
T ss_pred CCCC---CchHHHHHHHH-----HHHHHHHHHHHHHHHHHHh-------hCCCcc----chHHHHHHHHHHHHHHHH---
Confidence 8755 79987654332 1334444444333211100 111111 224566666676555544
Q ss_pred ccccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 379 RLLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWIL 431 (465)
Q Consensus 379 ~l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~ 431 (465)
.++.++||.-+++.|.+...+.|.+-..++-.++ +..+.+|.++++++|+.
T Consensus 333 ~l~alldCr~lh~dY~~al~g~C~dg~eGl~~l~--l~sll~al~f~~~v~~~ 383 (406)
T PF04906_consen 333 QLTALLDCRGLHKDYVDALRGLCYDGLEGLLYLL--LFSLLAALLFSILVCVV 383 (406)
T ss_pred HHHhhcccccHHHHHHHHHHhhccchHhHHHHHH--HHHHHHHHHHHHHHHHh
Confidence 8999999999999999999999999888886665 45555555566666554
No 3
>KOG4433 consensus Tweety transmembrane/cell surface protein [General function prediction only]
Probab=99.87 E-value=1.9e-20 Score=194.51 Aligned_cols=354 Identities=17% Similarity=0.198 Sum_probs=215.6
Q ss_pred CcCCccchhhhhhhhhhhHHHHHHHHHHHH--HHH-HHHHHHhCCcccCCCCC-CchhHHHHHHHHHHHHHHHHHHHHhh
Q 012361 2 YLIFSSLCMQSVGFTGASAFILAVIWFISF--GLV-LVAHHCCGWRINIKGKE-SASSQRICLILLIVFTCAAAIGCILL 77 (465)
Q Consensus 2 ~~i~~~hYwaSv~fTg~pgf~iA~~Wfi~f--Gl~-l~~~~cc~~~~~~~~~~-S~~~~~~slillilft~~ai~gc~vl 77 (465)
+++-++.|.+|.++.| ++|++.+++- ||+ -++|.|||++-..+++. +.++..+++++..+.++++| ++.
T Consensus 32 F~pe~~~Y~QaL~lla----~l~aa~l~l~Ll~ll~yli~~cC~Rr~~~~~~~~~~~c~s~~l~I~tl~cca~i---gvg 104 (526)
T KOG4433|consen 32 FRPEDSEYQQALLLLA----ALAAACLGLSLLFLLFYLICRCCCRRETTGRKRRRVRCLSWSLIIATLMCCAAI---GVG 104 (526)
T ss_pred CCCCcHHHHHHHHHHH----HHHHHHHHHHHHHHHHHHHHHHHcCCCccCCCCCCcceeeehHHHHHHHHHHHH---hee
Confidence 4677899999999999 7777766642 332 23356665543221222 34677788988888888887 888
Q ss_pred hcccchhhhhhhhhhhHHhccchHHHHHHHHHHHHHHhhhhhcccccc-cCchhhhh---HHH----HHHHHHHHHHHHH
Q 012361 78 SVGQDEFHGEAMHTLKYVVNQSDYTVKTLRNVTEYLSLAKTINVAQVF-LPSAVMDD---IDK----LNRDLSTAANTLA 149 (465)
Q Consensus 78 ~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrnvt~~L~~ak~~~v~~~~-lP~~~~~~---id~----l~~~Lns~A~~i~ 149 (465)
++||+++|++.... -|-.+.++.++.++++.+..++++.+....+.. -|..++.. +++ +++++..++.+.+
T Consensus 105 ~ygN~e~~~G~~q~-~~Sl~~an~tv~ti~~qv~~~~~~l~~~~~~~l~~~~~n~t~~~~l~~~l~~vq~~~~~a~~~l~ 183 (526)
T KOG4433|consen 105 FYGNSETSDGLLQA-TYSLRHANHTVSTIDAQVSDTAEGLNNTAEQLLETLEENLTARPELLQALRRVQGNAETAVGQLS 183 (526)
T ss_pred eecCccccchHHHH-HHhhhhhcchhhHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence 99999999997553 345677888888888887766665443222222 23333322 222 2223333333322
Q ss_pred HHhhh-----hHHHHHHHHHHH---HH-HHHHHHHHHHHHHHHHHHHHhhc-hhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 150 DKTSE-----NSAKIRKVFNAV---RS-ALITVAALMLLLSIIGLFLSILR-HKHAIHIFILSGWLLVAITFILCGVFVI 219 (465)
Q Consensus 150 ~k~~~-----n~~~I~~~l~~v---~~-~liiva~vml~l~~~glv~~~~~-~~~~~~~~~~~gwilv~~twil~G~~l~ 219 (465)
.-... ...++++..+.. |. ++.+..++.|++++++ ++|+++ .||+++.|.++|.+.++++|.+.|++++
T Consensus 184 ~~~~~~~~~~sl~~l~~~~~~yE~~RW~~~v~lL~l~LvvC~v~-vlglak~Skc~li~fsv~Gll~lvisWl~~gl~la 262 (526)
T KOG4433|consen 184 GLPFWRMVAVSLEKLAEQVDFYESYRWLAYVLLLTLLLVVCLVL-VLGLAKRSKCLLIVFSVCGLLALVISWLSLGLELA 262 (526)
T ss_pred cCcccccCcccHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHhcchhhhHHHHHHHHHHHHHHHHHhhhHH
Confidence 11111 122455544433 32 2334444444455433 444544 7999999999999999999999999999
Q ss_pred HHhhhhhhhHhhHhhhcCCCCCCcccccccCCcccchhhHHHHhHHHHHHHHHHHhHHHHHhhhcCCCCCcccccccCCC
Q 012361 220 LNNAISDTCMAMDEWVDHPHAETALSNILPCVDQRTTNKSLIQSKEVITDIVNVVNQFVYNIANANPSQDYIYYYNQTGP 299 (465)
Q Consensus 220 l~~~~~DtC~Am~e~~~~p~~~T~L~~iLPCvd~~~a~~~L~~~ke~i~~lv~~vN~~i~~i~n~n~~~~~~~yynqsgp 299 (465)
..++++|+|+.+|+|+.+-..+- + |= ....||-++.|
T Consensus 263 ~sVa~sDFC~~Pd~y~~~~~~~~-l----~t--------------------------------------~~~~~yl~c~~ 299 (526)
T KOG4433|consen 263 SSVALSDFCVDPDDYVLNMVEEY-L----ST--------------------------------------DILLYYLACSP 299 (526)
T ss_pred HHhhhhhhccChHHHHHHhhhcc-c----ch--------------------------------------hHHhhhcccCC
Confidence 99999999999999998765431 1 10 01235555544
Q ss_pred CCCCCCCCCCCCcccccCCCccccccchhhccccceeecCCCCCCCcccccCCCccchhhHHHHHHHHHHHHHHHhhhcc
Q 012361 300 VMPPLCYPYDSQLQDRQCGSYEVSIANASKVWQNYTCELSTSGSSAFGRCNSVGRVTPYFYKELVSAVTEIYALQLYTPR 379 (465)
Q Consensus 300 ~~p~lCnPf~~~~~~~~C~~gev~i~na~~v~~~~~C~~~~~~~~~~~~C~t~gr~tp~~y~q~~a~~n~~~~L~~~~P~ 379 (465)
.--|||.+.++..+=.-. .+.+.-+-..+..=.. .+ -..+....+....|.+..+++ .
T Consensus 300 ---t~~NpF~qrL~~sq~al~--~~~~~va~l~r~~v~~------------f~--~~q~~L~Av~~dLn~te~nl~---q 357 (526)
T KOG4433|consen 300 ---THSNPFQQRLTESQRALN--NMQSQVAGLLRMAVPL------------FP--AAQDPLLAVQEDLNSTERNLH---Q 357 (526)
T ss_pred ---CCCCchhHHHHHHHHHHH--HHHHHHHHHHHhhhhc------------cc--cccCcHHHHHHHHHHHHHHHH---H
Confidence 466888776543331111 1111111111111000 00 001114556667777666666 7
Q ss_pred cccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 380 LLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWIL 431 (465)
Q Consensus 380 l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~ 431 (465)
|..+.||.-+++-|.+...+.|.+--.++ +|..+..+-.|++|++++|..
T Consensus 358 LtAlvdCr~lH~dy~~AlrGlC~~gl~GL--~~lml~s~L~a~~lsilv~~~ 407 (526)
T KOG4433|consen 358 LTALVDCRSLHKDYVAALRGLCYDGLEGL--LYLMLFSFLTALALSILVCSD 407 (526)
T ss_pred HHHhhhhhHHHHHHHHHHHHhhhhhHHHH--HHHHHHHHHHHHHHHHHHhcc
Confidence 88999999999999999999998855544 344677777777777777443
No 4
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=98.46 E-value=0.00017 Score=82.46 Aligned_cols=95 Identities=18% Similarity=0.234 Sum_probs=56.1
Q ss_pred HHHHHHHHHHHHHHHHHH---HHHhCCcccC---CC----CCCchhHH-HHHHHHHHHHHHHHHHHHhhhcccchhhhhh
Q 012361 20 AFILAVIWFISFGLVLVA---HHCCGWRINI---KG----KESASSQR-ICLILLIVFTCAAAIGCILLSVGQDEFHGEA 88 (465)
Q Consensus 20 gf~iA~~Wfi~fGl~l~~---~~cc~~~~~~---~~----~~S~~~~~-~slillilft~~ai~gc~vl~~Gq~kfh~~~ 88 (465)
||++.++..++|.+++-+ |+||||||.+ +- +++..|.+ ..-++|++++++-++|.+..|..|+.+|.+.
T Consensus 92 g~~v~~~i~ll~~il~P~vg~~fCcCRCc~~CGg~~~~~~~~~~~c~R~~l~~~L~~~~~~il~g~i~aF~~n~~l~~~v 171 (806)
T PF05478_consen 92 GFLVCAVIGLLFIILMPLVGLCFCCCRCCGNCGGRMHQRDKKNDACRRGCLGILLLLLTLIILFGVICAFVANQQLSTGV 171 (806)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccccCCCcCCccccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 455555444444444322 5666655532 11 11223433 3344456777777888888999999999998
Q ss_pred hhhhhHHhccchHHHHHHHHHHHHHH
Q 012361 89 MHTLKYVVNQSDYTVKTLRNVTEYLS 114 (465)
Q Consensus 89 ~~t~~~Vv~qad~tv~~lrnvt~~L~ 114 (465)
.++.+.+-+..+|+-.=++++.+.++
T Consensus 172 ~~~~~~~~~~~~Dl~~~l~~~~~qi~ 197 (806)
T PF05478_consen 172 DDTPNTVNSTLDDLRTFLNDTPQQID 197 (806)
T ss_pred hhHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 88877666666655555555554443
No 5
>cd07912 Tweety_N N-terminal domain of the protein encoded by the Drosophila tweety gene and related proteins, a family of chloride ion channels. The protein product of the Drosophila tweety (tty) gene is thought to form a trans-membrane protein with five membrane-spanning regions and a cytoplasmic C-terminus. This N-terminal domain contains the putative transmembrane spanning regions. Tweety has been suggested as a candidate for a large conductance chloride channel, both in vertebrate and insect cells. Three human homologs have been identified and designated TTYH1-3. TTYH2 has been associated with the progression of cancer, and Drosophila melanogaster tweety has been assumed to play a role in development. TTYH2, and TTYH3 bind to and are ubiquinated by Nedd4-2, a HECT type E3 ubiquitin ligase, which most likely plays a role in controlling the cellular levels of tweety family proteins.
Probab=96.81 E-value=0.06 Score=57.54 Aligned_cols=171 Identities=19% Similarity=0.222 Sum_probs=82.4
Q ss_pred HHHHHHHHHHhCCc----ccCCCCCCc-hhHHHHHHHHHHHHHHHHHHHHhhhcccchhhhh---hhhhhhHHhccchHH
Q 012361 31 FGLVLVAHHCCGWR----INIKGKESA-SSQRICLILLIVFTCAAAIGCILLSVGQDEFHGE---AMHTLKYVVNQSDYT 102 (465)
Q Consensus 31 fGl~l~~~~cc~~~----~~~~~~~S~-~~~~~slillilft~~ai~gc~vl~~Gq~kfh~~---~~~t~~~Vv~qad~t 102 (465)
|.++.++++||||+ .++.+.... .+..+..++...-.+.+..|=.=...|-.+.-+. +..++.-+-+|.+..
T Consensus 56 ~ll~~~~~~CCcr~~~~~~k~~s~~c~~~sLiiltL~~~aaIi~~f~GN~~~h~gV~~t~~si~~an~tv~~l~nqv~~l 135 (418)
T cd07912 56 FLLVYLITRCCDRKPTEERPRHSICCLKWSLVIATLLCCAAIGVGLYGNDETHDGVVQLTYSLRNANHTVAGIDNQTSDT 135 (418)
T ss_pred HHHHHHHHhccCCCCCCCCCCCCccHHHHHHHHHHHHHHHHHHHHhhccHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45566667888777 456665533 3444333333333344565544443333333332 344444445555555
Q ss_pred HHHHHHHH-HHHHhhhhh-cc----cccc-cCchhhhhHHHHHHHHHH---------HHHHHHHHhhhhHHHHHHHHHHH
Q 012361 103 VKTLRNVT-EYLSLAKTI-NV----AQVF-LPSAVMDDIDKLNRDLST---------AANTLADKTSENSAKIRKVFNAV 166 (465)
Q Consensus 103 v~~lrnvt-~~L~~ak~~-~v----~~~~-lP~~~~~~id~l~~~Lns---------~A~~i~~k~~~n~~~I~~~l~~v 166 (465)
.++++... +.|++.+.+ +. .+.. .-.+.|++.+++.+++.. ..+.+.++++. .+.||-. .
T Consensus 136 ~~al~~t~~~~L~~L~~il~~~~~~~~~~~~~~~~q~~~~n~~~~~~~~~~~~~~~~~l~~i~~~~~~-~E~~Rw~---~ 211 (418)
T cd07912 136 EASLNVTVEPQLTNLEDIFDARVNKTDYLQIVQGLQQMATNAAQQLTGIPFWSLVGVSLTKLADQVSL-YESYRWL---A 211 (418)
T ss_pred HHHHhhhhhhhHhHHHHHhCCCcchhhHHHHHHHHHHHHHHHHHHHhccccccccCCCHHHHHHHHHH-HHHHHHH---H
Confidence 55442222 123322110 00 0000 112345555554443332 34555555555 6677763 5
Q ss_pred HHHHHHHHHHHHHHHHHHH---------HHHhhchhhHHHHHHHHHHHHHHHH
Q 012361 167 RSALITVAALMLLLSIIGL---------FLSILRHKHAIHIFILSGWLLVAIT 210 (465)
Q Consensus 167 ~~~liiva~vml~l~~~gl---------v~~~~~~~~~~~~~~~~gwilv~~t 210 (465)
.+.+.++..+..+++++|+ +|+++|+ +.+++.|++..+-
T Consensus 212 ~l~lL~~~lviC~~~l~gl~r~Sr~~li~~s~~g~-----l~l~~~W~~~~~~ 259 (418)
T cd07912 212 YLGLLSLLLVICLVLLVGLARHSRCLLIVFSVCGL-----FALIISWLSLGLY 259 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHH-----HHHHHHHHHHHHH
Confidence 6666666676666667775 3444443 3345567776554
No 6
>KOG4331 consensus Polytopic membrane protein Prominin [General function prediction only]
Probab=96.59 E-value=0.0094 Score=67.31 Aligned_cols=70 Identities=7% Similarity=0.072 Sum_probs=55.8
Q ss_pred HHHHHHHHHHHHHHHhhh-cccccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 360 YKELVSAVTEIYALQLYT-PRLLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWIL 431 (465)
Q Consensus 360 y~q~~a~~n~~~~L~~~~-P~l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~ 431 (465)
..++..+ .+|-+.+|- |..|++.+|+-+.....+-+.-.|.=..+-+..-|.+++...+-+..++++-.-
T Consensus 741 ~~~~~~~--~~~YI~wv~~e~~e~V~sCqPls~~l~~~~~~lC~~~iDPlN~fW~~il~c~~lliP~li~a~~ 811 (865)
T KOG4331|consen 741 LRRIKGY--ISQYILWVQKEHLENVASCQPLSKILRENVVVLCGYIIDPLNLFWFCILFCTVLLIPSLIFAVK 811 (865)
T ss_pred HHHHHhh--HHHHHHHHHHHHHhhccccccHHHHHHhhhHhhhhhccCCccccchHHHHHHHHHHhHHHHHHH
Confidence 3455553 333344443 888999999999999998888899999999999999999999999998888655
No 7
>PF04906 Tweety: Tweety; InterPro: IPR006990 None of the members of the tweety (tty) family have been functionally characterised. However, they are considered to be transmembrane proteins with five potential membrane-spanning regions. A number of potential functions have been suggested on the basis of homology to the yeast FTR1 and FTH1 iron transporter proteins and the mammalian neurotensin receptors 1 and 2 in that they have a similar hydrophobicity profiles although there is no detectable sequence homology to the tweety-related proteins. It has been proposed that the tweety-related proteins could be involved in transport of iron or other divalent cations or alternatively that they may be membrane-bound receptors [].
Probab=95.18 E-value=4.4 Score=43.31 Aligned_cols=110 Identities=16% Similarity=0.274 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------HHhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhh
Q 012361 156 SAKIRKVFNAVRSALITVAALMLLLSIIGLF---------LSILRHKHAIHIFILSGWLLVAITFILCGVFVILNNAISD 226 (465)
Q Consensus 156 ~~~I~~~l~~v~~~liiva~vml~l~~~glv---------~~~~~~~~~~~~~~~~gwilv~~twil~G~~l~l~~~~~D 226 (465)
.+.+|-. ..+.+.++..+.+++.++|+. +.++| .+.+++.|++..+-.-. -..++=+=.|
T Consensus 181 ~E~yRw~---~~~~lL~l~l~icl~~l~glar~Sk~~li~~~v~g-----ll~lvisW~~~g~~la~---aV~~SDFC~~ 249 (406)
T PF04906_consen 181 YEYYRWL---AYLGLLILDLVICLLGLLGLARQSKCLLIVFSVLG-----LLALVISWISLGLELAA---AVGLSDFCVD 249 (406)
T ss_pred HHHHHHH---HHHHHHHHHHHHHHHHHHHHHhcCcceEEEeeecc-----HHHHHHHHHHHHHHHHh---ccchhhhccC
Confidence 5566664 556666667767777777763 23444 23444578876554211 1122211111
Q ss_pred hhHhhHhhhcCCCCCCcccccccCCcccc--hhhHHHHhHHHHHHHHHHHhH
Q 012361 227 TCMAMDEWVDHPHAETALSNILPCVDQRT--TNKSLIQSKEVITDIVNVVNQ 276 (465)
Q Consensus 227 tC~Am~e~~~~p~~~T~L~~iLPCvd~~~--a~~~L~~~ke~i~~lv~~vN~ 276 (465)
-=.-..+..+++....-+.-.+-|....+ -++.+..+...+.++-+++..
T Consensus 250 Pd~~i~~~~~~~~~~di~~YYl~C~~~~~nPFqq~l~~~~~al~~~q~~~~~ 301 (406)
T PF04906_consen 250 PDTYILNQTQNETSADILQYYLTCSQSVSNPFQQRLTSSQRALSNMQSQVQG 301 (406)
T ss_pred HHHHHHHhcccccchhHHHHhhcCCCCCCCchHHHHHHHHHHHHHHHHHHHH
Confidence 11112223333332112567777765432 123455555555555444443
No 8
>PF05478 Prominin: Prominin; InterPro: IPR008795 The prominins are an emerging family of proteins that, among the multispan membrane proteins, display a novel topology. Mouse and Homo sapiens prominin and (Mus musculus) prominin-like 1 (PROML1) are predicted to contain five membrane spanning domains, with an N-terminal domain exposed to the extracellular space followed by four, alternating small cytoplasmic and large extracellular, loops and a cytoplasmic C-terminal domain []. The exact function of prominin is unknown although in humans defects in PROM1, the gene coding for prominin, cause retinal degeneration [].; GO: 0016021 integral to membrane
Probab=93.63 E-value=1.8 Score=50.03 Aligned_cols=53 Identities=9% Similarity=0.197 Sum_probs=47.0
Q ss_pred ccccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 379 RLLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWIL 431 (465)
Q Consensus 379 ~l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~ 431 (465)
.-++...|.-+.+++...+.--|.-+...+.-.|.|+..-+.-+++++++-+-
T Consensus 738 ~~~~vg~C~Pl~~~~d~~~~~~C~~ivdp~N~fWf~l~~c~~~liP~ii~avk 790 (806)
T PF05478_consen 738 ITNDVGRCQPLANIYDSAVVILCSRIVDPINGFWFGLGWCTLFLIPSIIFAVK 790 (806)
T ss_pred HHccCcCCccHHHHHHhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578899999999999999999999999999999999988888888877554
No 9
>KOG4433 consensus Tweety transmembrane/cell surface protein [General function prediction only]
Probab=87.00 E-value=21 Score=39.00 Aligned_cols=113 Identities=19% Similarity=0.205 Sum_probs=55.5
Q ss_pred HHHHHHH--HHHhCCcccCCCCCCchhHHHHHHHHHHHHHHHHHHHHhhhcccchhhhhhhhhhhHHhccchHHHHHHHH
Q 012361 31 FGLVLVA--HHCCGWRINIKGKESASSQRICLILLIVFTCAAAIGCILLSVGQDEFHGEAMHTLKYVVNQSDYTVKTLRN 108 (465)
Q Consensus 31 fGl~l~~--~~cc~~~~~~~~~~S~~~~~~slillilft~~ai~gc~vl~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrn 108 (465)
.|+.|+. .+..|+||+|++..-++.+...-+--. +.|+.+++|+.+-.| -+.++ ++-+-+..
T Consensus 54 l~l~Ll~ll~yli~~cC~Rr~~~~~~~~~~~c~s~~-l~I~tl~cca~igvg--~ygN~-------------e~~~G~~q 117 (526)
T KOG4433|consen 54 LGLSLLFLLFYLICRCCCRRETTGRKRRRVRCLSWS-LIIATLMCCAAIGVG--FYGNS-------------ETSDGLLQ 117 (526)
T ss_pred HHHHHHHHHHHHHHHHHcCCCccCCCCCCcceeeeh-HHHHHHHHHHHHhee--eecCc-------------cccchHHH
Confidence 3444443 344456666555444444443322212 224445666665432 22222 23333334
Q ss_pred HHHHHHhhhhhcccccccCchhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 012361 109 VTEYLSLAKTINVAQVFLPSAVMDDIDKLNRDLSTAANTLADKTSENSAKIRKVFNAV 166 (465)
Q Consensus 109 vt~~L~~ak~~~v~~~~lP~~~~~~id~l~~~Lns~A~~i~~k~~~n~~~I~~~l~~v 166 (465)
.+.++..|+.. + .-++.++.+++++|+..+.+..+|-.+|..-..+.+..+
T Consensus 118 ~~~Sl~~an~t-v------~ti~~qv~~~~~~l~~~~~~~l~~~~~n~t~~~~l~~~l 168 (526)
T KOG4433|consen 118 ATYSLRHANHT-V------STIDAQVSDTAEGLNNTAEQLLETLEENLTARPELLQAL 168 (526)
T ss_pred HHHhhhhhcch-h------hHHHHHHHHHHHHHHHHHHHHhhhHHhhhhhHHHHHHHH
Confidence 44455544421 1 134556677777887777777777777665444443333
No 10
>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=86.79 E-value=6.4 Score=32.64 Aligned_cols=24 Identities=17% Similarity=0.394 Sum_probs=12.4
Q ss_pred hhhHHHHH---HHHHHHHHHHHHHhhh
Q 012361 131 MDDIDKLN---RDLSTAANTLADKTSE 154 (465)
Q Consensus 131 ~~~id~l~---~~Lns~A~~i~~k~~~ 154 (465)
.+.++.++ ++|...|..+..++.+
T Consensus 30 ge~L~~L~~kt~~L~~~a~~F~k~a~~ 56 (89)
T PF00957_consen 30 GEKLEELEDKTEELSDNAKQFKKNAKK 56 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred CchHHHHHHHHHHHHHHhHHHHHHHHH
Confidence 34444444 5666666665544433
No 11
>PF03904 DUF334: Domain of unknown function (DUF334); InterPro: IPR005602 This is a family of proteins found in Staphylococcus aureus plasmid with no characterised function.
Probab=83.55 E-value=34 Score=33.99 Aligned_cols=22 Identities=18% Similarity=0.312 Sum_probs=12.8
Q ss_pred HhccchHHHHHHHHHHHHHHhh
Q 012361 95 VVNQSDYTVKTLRNVTEYLSLA 116 (465)
Q Consensus 95 Vv~qad~tv~~lrnvt~~L~~a 116 (465)
+-++-|.--...++++..|+.|
T Consensus 62 i~~~qd~reK~~~~I~ssL~eT 83 (230)
T PF03904_consen 62 IEEKQDIREKNLKEIKSSLEET 83 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555556666666666653
No 12
>KOG2348 consensus Urea transporter [Amino acid transport and metabolism]
Probab=80.55 E-value=1.9 Score=46.77 Aligned_cols=72 Identities=18% Similarity=0.407 Sum_probs=40.6
Q ss_pred HHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HHHhhchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 143 TAANTLADKTSENSAKIRKVFNAVRSALITVAALMLLLSIIGL-FLSILRHKHAIHIFILSGWLLVAITFILCGVFVIL 220 (465)
Q Consensus 143 s~A~~i~~k~~~n~~~I~~~l~~v~~~liiva~vml~l~~~gl-v~~~~~~~~~~~~~~~~gwilv~~twil~G~~l~l 220 (465)
++++|+.++-.+ .++.++.+.. .+..++.+.++|+.+ -+-.+|.+-...-..|.||+.+++.|++++.|.+.
T Consensus 535 a~~~E~~d~e~e-k~kl~Ra~~i-----~~~~~li~t~~~viiwP~pmygskyIFSk~fF~gWviV~iiW~~~~a~~i~ 607 (667)
T KOG2348|consen 535 AEAEEIVDAEQE-KKKLNRALRI-----GIFVSLIITFAFVIIWPLPMYGSKYIFSKLFFTGWVIVIIIWTFIAAFAIT 607 (667)
T ss_pred cccchhcchhHH-HHHHhhhhhH-----HHHHHHHHHHHHHhhccccccCccceeechhhhHHHHHHHHHHHHHHHheE
Confidence 344454444433 3366665544 333444443433321 22234444445555677999999999999987654
No 13
>PF15099 PIRT: Phosphoinositide-interacting protein family
Probab=76.33 E-value=0.85 Score=41.13 Aligned_cols=41 Identities=17% Similarity=0.341 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHH---HHHHhcCCCcccccccCCCCcc
Q 012361 408 LKIVNAGLGMISFGVLLCLLL---WILYANRPQREEVFVNLPLPIK 450 (465)
Q Consensus 408 ~~~v~~gl~~lS~~~~l~~i~---Wi~~~r~~~~~~~~~~~~~~~~ 450 (465)
++++ |++++|.|+||++.- |+..-|++|++|+.+.-.+..+
T Consensus 80 ~~~~--G~vlLs~GLmlL~~~alcW~~~~rkK~~kr~eSq~~~~~~ 123 (129)
T PF15099_consen 80 ISIF--GPVLLSLGLMLLACSALCWKPIIRKKKKKRRESQTALVLN 123 (129)
T ss_pred hhhe--hHHHHHHHHHHHHhhhheehhhhHhHHHHhhhhhHHHHhh
Confidence 4555 999999999988754 9997777666666554433333
No 14
>COG5336 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=74.34 E-value=27 Score=31.07 Aligned_cols=72 Identities=19% Similarity=0.279 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhhhHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-hhch-hhHHHHHHHHHHHH
Q 012361 134 IDKLNRDLSTAANTLADKTSENSA-KIRKVFNAVRSALITVAALMLLLSIIGLFLS-ILRH-KHAIHIFILSGWLL 206 (465)
Q Consensus 134 id~l~~~Lns~A~~i~~k~~~n~~-~I~~~l~~v~~~liiva~vml~l~~~glv~~-~~~~-~~~~~~~~~~gwil 206 (465)
+..+..+|.+.+...++..++++. +++...+.+++..=.|+++|..+.+ |.++- ++|- +..+++|.++|.++
T Consensus 13 ~~~l~~dlaar~kd~~~~~~~~~a~s~k~~~~a~klssefIsGilVGa~i-G~llD~~agTsPwglIv~lllGf~A 87 (116)
T COG5336 13 NTELLADLAARIKDAAEGAEKSSAESIKGYAQAFKLSSEFISGILVGAGI-GWLLDKFAGTSPWGLIVFLLLGFGA 87 (116)
T ss_pred HHHHHHHHHHHhhhhccccccccchhhhhhhhhHHHHHHHHHHHHHHHHH-HHHHHHhcCCCcHHHHHHHHHHHHH
Confidence 344455555555555555444444 6888888899988888888877653 65443 4443 34566666666543
No 15
>COG1823 Predicted Na+/dicarboxylate symporter [General function prediction only]
Probab=73.80 E-value=1.4e+02 Score=32.29 Aligned_cols=82 Identities=20% Similarity=0.437 Sum_probs=46.6
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH------HHHHHHHHHHhhchhhH--HHHHHHHHHHHHHHHH
Q 012361 140 DLSTAANTLADKTSENSAKIRKVFNAVRSALITVAALML------LLSIIGLFLSILRHKHA--IHIFILSGWLLVAITF 211 (465)
Q Consensus 140 ~Lns~A~~i~~k~~~n~~~I~~~l~~v~~~liiva~vml------~l~~~glv~~~~~~~~~--~~~~~~~gwilv~~tw 211 (465)
=+.-++-.+..|..+..+++++.+|.++...+-+....+ ++++..=+++--++... +-.|++...+..+++|
T Consensus 196 ~lGiAalk~~k~~~~~ge~~~~~I~t~~~ivM~lV~~VirLTPYgV~AlMtkv~ats~~~~I~~Lg~FivAsY~Ai~~MF 275 (458)
T COG1823 196 FLGIAALKLSKKDPEKGERFKAAIDTLQSIVMKLVRLVIRLTPYGVLALMTKVVATSNLEDIIKLGSFIVASYIAIFIMF 275 (458)
T ss_pred HHHHHHHHhhhhchHhHhHHHHHHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHhhccHHHHHHHHhHHHHHHHHHHHHH
Confidence 344555666666666677788888876654332222222 22222223333344444 3456666788888888
Q ss_pred HHHHHHHHHH
Q 012361 212 ILCGVFVILN 221 (465)
Q Consensus 212 il~G~~l~l~ 221 (465)
++.|+.++++
T Consensus 276 vvH~iLL~~~ 285 (458)
T COG1823 276 VVHGILLALN 285 (458)
T ss_pred HHHHHHHHHc
Confidence 8888877775
No 16
>PF04156 IncA: IncA protein; InterPro: IPR007285 Chlamydia trachomatis is an obligate intracellular bacterium that develops within a parasitophorous vacuole termed an inclusion. The inclusion is nonfusogenic with lysosomes but intercepts lipids from a host cell exocytic pathway. Initiation of chlamydial development is concurrent with modification of the inclusion membrane by a set of C. trachomatis-encoded proteins collectively designated Incs. One of these Incs, IncA (Inclusion membrane protein A), is functionally associated with the homotypic fusion of inclusions [].
Probab=70.77 E-value=29 Score=32.52 Aligned_cols=41 Identities=17% Similarity=0.220 Sum_probs=18.5
Q ss_pred HHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 179 LLSIIGLFLSILRHKHAIHIFILSGWLLVAITFILCGVFVI 219 (465)
Q Consensus 179 ~l~~~glv~~~~~~~~~~~~~~~~gwilv~~twil~G~~l~ 219 (465)
+.+++++++...++-.++..+...+++.+.+..+..|++++
T Consensus 20 ~~gI~~Lv~~~~~l~~~~s~~lg~~~lAlg~vL~~~g~~~~ 60 (191)
T PF04156_consen 20 ASGIAALVLFISGLGALISFILGIALLALGVVLLSLGLLCL 60 (191)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33333444444344444444444445544444444555444
No 17
>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=69.70 E-value=44 Score=30.30 Aligned_cols=51 Identities=24% Similarity=0.268 Sum_probs=33.3
Q ss_pred chhhhhhhhhhhHHhccchHHHHHHHHHHHHHHhhhhhcccccccCchhhhhHHHHHHHHH
Q 012361 82 DEFHGEAMHTLKYVVNQSDYTVKTLRNVTEYLSLAKTINVAQVFLPSAVMDDIDKLNRDLS 142 (465)
Q Consensus 82 ~kfh~~~~~t~~~Vv~qad~tv~~lrnvt~~L~~ak~~~v~~~~lP~~~~~~id~l~~~Ln 142 (465)
=+|-.-..-|..=.-++.+.....|.+++++|+.||. -..+.||.+..+|.
T Consensus 28 ws~sD~M~vTrr~m~~A~~~v~kql~~vs~~l~~tKk----------hLsqRId~vd~klD 78 (126)
T PF07889_consen 28 WSFSDLMFVTRRSMSDAVASVSKQLEQVSESLSSTKK----------HLSQRIDRVDDKLD 78 (126)
T ss_pred CchhHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHH----------HHHHHHHHHHhhHH
Confidence 3444444444555566677888999999999999986 23456666554444
No 18
>PF03908 Sec20: Sec20; InterPro: IPR005606 Sec20 is a membrane glycoprotein associated with secretory pathway.
Probab=69.57 E-value=63 Score=27.10 Aligned_cols=20 Identities=30% Similarity=0.411 Sum_probs=10.8
Q ss_pred hccchHHHHHHHHHHHHHHh
Q 012361 96 VNQSDYTVKTLRNVTEYLSL 115 (465)
Q Consensus 96 v~qad~tv~~lrnvt~~L~~ 115 (465)
+.+++.+.++|.+-|+.|+.
T Consensus 21 v~~s~~t~~~L~~Ss~~L~~ 40 (92)
T PF03908_consen 21 VERSELTLQTLEESSATLRS 40 (92)
T ss_pred HHHHHHHHHHHHHhHHHHHH
Confidence 44555555555555555443
No 19
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=68.52 E-value=64 Score=28.92 Aligned_cols=16 Identities=13% Similarity=0.264 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHhhh
Q 012361 139 RDLSTAANTLADKTSE 154 (465)
Q Consensus 139 ~~Lns~A~~i~~k~~~ 154 (465)
.+|+.+|+.....+.+
T Consensus 67 d~L~~~as~F~~~A~k 82 (116)
T KOG0860|consen 67 DQLQAGASQFEKTAVK 82 (116)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 6788888887666544
No 20
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=66.54 E-value=77 Score=29.16 Aligned_cols=25 Identities=16% Similarity=0.118 Sum_probs=14.6
Q ss_pred hhhhhhhhHHhccchHHHHHHHHHH
Q 012361 86 GEAMHTLKYVVNQSDYTVKTLRNVT 110 (465)
Q Consensus 86 ~~~~~t~~~Vv~qad~tv~~lrnvt 110 (465)
+++..++|++-++-+.....+..++
T Consensus 27 kkv~~tldevakt~~~l~~qv~gi~ 51 (139)
T COG4768 27 KKVSKTLDEVAKTLKGLTSQVDGIT 51 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5666677776666555544444444
No 21
>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=65.87 E-value=53 Score=27.11 Aligned_cols=23 Identities=22% Similarity=0.540 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHhhh---hHHHHHH
Q 012361 139 RDLSTAANTLADKTSE---NSAKIRK 161 (465)
Q Consensus 139 ~~Lns~A~~i~~k~~~---n~~~I~~ 161 (465)
+.|...++++++.+.+ +++++++
T Consensus 34 ~~L~~kt~~L~~~a~~F~k~a~~l~r 59 (89)
T PF00957_consen 34 EELEDKTEELSDNAKQFKKNAKKLKR 59 (89)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence 5666777777555543 4444444
No 22
>TIGR00383 corA magnesium Mg(2+) and cobalt Co(2+) transport protein (corA). The article in Microb Comp Genomics 1998;3(3):151-69 (Medline:98448512) discusses this family and suggests that some members may have functions other than Mg2+ transport.
Probab=62.58 E-value=1.2e+02 Score=30.72 Aligned_cols=19 Identities=21% Similarity=0.356 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 012361 169 ALITVAALMLLLSIIGLFL 187 (465)
Q Consensus 169 ~liiva~vml~l~~~glv~ 187 (465)
.|-+++++++.+.+++=++
T Consensus 260 ~LTvvt~IflP~t~IaGiy 278 (318)
T TIGR00383 260 ILTVVSTIFIPLTFIAGIY 278 (318)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 3455566666665543333
No 23
>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]
Probab=60.07 E-value=2.9e+02 Score=31.08 Aligned_cols=60 Identities=17% Similarity=0.137 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcccchhhhhhhhhhh------HHhccchHHHHHHHHHHHHHHh
Q 012361 56 QRICLILLIVFTCAAAIGCILLSVGQDEFHGEAMHTLK------YVVNQSDYTVKTLRNVTEYLSL 115 (465)
Q Consensus 56 ~~~slillilft~~ai~gc~vl~~Gq~kfh~~~~~t~~------~Vv~qad~tv~~lrnvt~~L~~ 115 (465)
++.-++|-|+..+.++.+++.|+.=.+=|-+.+.-... |+-..+--..+-.|.++.|.|.
T Consensus 14 ~~~~l~Lgi~l~~~t~lasigLl~lSGwfisasAiag~~~~f~~~~p~a~VR~~aI~Rt~~RY~ER 79 (573)
T COG4987 14 HKFGLLLGIVLAILTLLASIGLLTLSGWFISASAIAGLAYIFNVMLPSAGVRGLAILRTAARYVER 79 (573)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34556666666666666666666555555444322222 2233333455667777777774
No 24
>PF05957 DUF883: Bacterial protein of unknown function (DUF883); InterPro: IPR010279 This family consists of several bacterial proteins of unknown function that include the Escherichia coli genes for ElaB, YgaM and YqjD.
Probab=59.87 E-value=1e+02 Score=25.77 Aligned_cols=31 Identities=13% Similarity=0.237 Sum_probs=16.6
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 012361 131 MDDIDKLNRDLSTAANTLADKTSENSAKIRK 161 (465)
Q Consensus 131 ~~~id~l~~~Lns~A~~i~~k~~~n~~~I~~ 161 (465)
.+.+++...++...++...+++.+-....++
T Consensus 37 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~ 67 (94)
T PF05957_consen 37 EEALDDARDRAEDAADQAREQAREAAEQTED 67 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3445555556666666665555554444444
No 25
>PF07662 Nucleos_tra2_C: Na+ dependent nucleoside transporter C-terminus; InterPro: IPR011657 This entry consists of nucleoside transport proteins. Q62773 from SWISSPROT is a purine-specific Na+-nucleoside cotransporter localised to the bile canalicular membrane []. Q62674 from SWISSPROT is a Na+-dependent nucleoside transporter selective for pyrimidine nucleosides and adenosine. It also transports the anti-viral nucleoside analogues AZT and ddC []. This entry covers the C terminus of this family of transporters.; PDB: 3TIJ_A.
Probab=54.02 E-value=97 Score=30.50 Aligned_cols=53 Identities=15% Similarity=0.385 Sum_probs=32.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhchh---h---HHHHHHHHHHHHHHHHHHH
Q 012361 161 KVFNAVRSALITVAALMLLLSIIGLFLSILRHK---H---AIHIFILSGWLLVAITFIL 213 (465)
Q Consensus 161 ~~l~~v~~~liiva~vml~l~~~glv~~~~~~~---~---~~~~~~~~gwilv~~twil 213 (465)
-+.+++++++.+.+-++-.++++.++=+++++- . -+.+=.++||++-.+.|++
T Consensus 50 Ga~~g~~la~~I~a~LIafvalial~N~~l~~ig~~~g~~~lsl~~ilGyif~P~awlm 108 (210)
T PF07662_consen 50 GALDGLKLALNIGAMLIAFVALIALLNGVLGWIGSLFGIEGLSLQQILGYIFSPLAWLM 108 (210)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHGGGT-TT--HHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcCCccccHHHHHhhhhhHHHHHc
Confidence 455677888777777666666666533333321 1 1456667788888888886
No 26
>KOG4331 consensus Polytopic membrane protein Prominin [General function prediction only]
Probab=51.28 E-value=2e+02 Score=33.75 Aligned_cols=77 Identities=21% Similarity=0.214 Sum_probs=51.7
Q ss_pred HHHhCCcccCCCCC--Cc-----hh-HHHHHHHHHHHHHHHHHHHHhhhcccchhhhhhhhhhhHHhccchHHHHHHHHH
Q 012361 38 HHCCGWRINIKGKE--SA-----SS-QRICLILLIVFTCAAAIGCILLSVGQDEFHGEAMHTLKYVVNQSDYTVKTLRNV 109 (465)
Q Consensus 38 ~~cc~~~~~~~~~~--S~-----~~-~~~slillilft~~ai~gc~vl~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrnv 109 (465)
|+|||+||+++.++ +. .+ +...-+.|++.++.-++|.+-.+..|...|.+..++.+-.-+-++++-.-+|++
T Consensus 126 ~yccc~C~~rc~~r~~~~~~~~~a~kR~~~~l~Llvl~i~~ligv~~~fvtnk~v~~~i~~s~~~m~~~~~dl~t~lrdv 205 (865)
T KOG4331|consen 126 CYCCCRCCRRCGGRIKSALKQDDACKRPCCELELLVLAIELLIGVFRAFVTNKPVMLRIKNSLEDMRRLATDLRTYLRDV 205 (865)
T ss_pred HhheeeeHhhhcCCCCchhccCcHhhhhHHHHHHHHHHHHHHHHHHHHHHHhhHHHHhhhccHHHHHHHHHHHHHHHhcc
Confidence 56666666543332 22 12 234555667778888999999999999999999888776666666666666665
Q ss_pred HHHHH
Q 012361 110 TEYLS 114 (465)
Q Consensus 110 t~~L~ 114 (465)
-+.+.
T Consensus 206 ~~~l~ 210 (865)
T KOG4331|consen 206 PRDLM 210 (865)
T ss_pred HHHHH
Confidence 55444
No 27
>PF12732 YtxH: YtxH-like protein; InterPro: IPR024623 This family of uncharacterised proteins is found in bacteria. Proteins in this family are typically between 100 and 143 amino acids in length. The N-terminal region is the most conserved.
Probab=50.13 E-value=96 Score=24.89 Aligned_cols=45 Identities=16% Similarity=0.058 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHhhhcccchhhhhhhhhhhHHhccchHHHHHHHHHHHH
Q 012361 65 VFTCAAAIGCILLSVGQDEFHGEAMHTLKYVVNQSDYTVKTLRNVTEY 112 (465)
Q Consensus 65 lft~~ai~gc~vl~~Gq~kfh~~~~~t~~~Vv~qad~tv~~lrnvt~~ 112 (465)
-|.+.+++|.++.+-=.-+-..+ +.+-|.+++++..+++.+..+.
T Consensus 4 g~l~Ga~~Ga~~glL~aP~sG~e---~R~~l~~~~~~~~~~~~~~~~~ 48 (74)
T PF12732_consen 4 GFLAGAAAGAAAGLLFAPKSGKE---TREKLKDKAEDLKDKAKDLYEE 48 (74)
T ss_pred HHHHHHHHHHHHHHHhCCCCcHH---HHHHHHHHHHHHHHHHHHHHHH
Confidence 34445555554443222222233 4556666677666666555543
No 28
>PTZ00358 hypothetical protein; Provisional
Probab=50.03 E-value=31 Score=36.26 Aligned_cols=61 Identities=15% Similarity=0.217 Sum_probs=29.2
Q ss_pred hHHHHHHHHHHHHHHHHHH-HHH--hCCcccCCCCCCchhHH-HHHHHHHHHHHHHHHHHHhhhcccc
Q 012361 19 SAFILAVIWFISFGLVLVA-HHC--CGWRINIKGKESASSQR-ICLILLIVFTCAAAIGCILLSVGQD 82 (465)
Q Consensus 19 pgf~iA~~Wfi~fGl~l~~-~~c--c~~~~~~~~~~S~~~~~-~slillilft~~ai~gc~vl~~Gq~ 82 (465)
|-|.||++-+...|--|.+ +-| +||.|.+.++ -||- ...+.|.++...|+.++.+-+.|.+
T Consensus 108 pIYgiavvlL~ILggTLyCGWKCnLFcRPCCkSQy---iCYgSaiVvVLviL~vlavt~sl~~~~~~~ 172 (367)
T PTZ00358 108 PIYGIAVVLLGILGGTLYCGWKCNLFCRPCCKSQY---ICYGSAIVVVLVILIVLAVTASLIAFVGRS 172 (367)
T ss_pred chHHHHHHHHHHHHhhhhcccccCcccccccccce---eeehhhHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 5677777766333333333 222 2333332222 1221 2222334445566777777777776
No 29
>COG4768 Uncharacterized protein containing a divergent version of the methyl-accepting chemotaxis-like domain [General function prediction only]
Probab=46.50 E-value=1.8e+02 Score=26.79 Aligned_cols=17 Identities=24% Similarity=0.440 Sum_probs=10.4
Q ss_pred HHHHHHHHHHHHHhhhh
Q 012361 139 RDLSTAANTLADKTSEN 155 (465)
Q Consensus 139 ~~Lns~A~~i~~k~~~n 155 (465)
.++|++++.+++++..+
T Consensus 90 ~~ln~s~r~~~~~~t~~ 106 (139)
T COG4768 90 SDLNQSVRHLATRATNA 106 (139)
T ss_pred HHHHHHHHHHHHHHhhH
Confidence 56677776666655443
No 30
>PF00558 Vpu: Vpu protein; InterPro: IPR008187 The Human immunodeficiency virus 1 (HIV-1) Vpu protein acts in the degradation of CD4 in the endoplasmic reticulum and in the enhancement of virion release from the plasma membrane of infected cells [].; GO: 0019076 release of virus from host; PDB: 2JPX_A 1PI8_A 2GOH_A 2GOF_A 1PI7_A 1PJE_A 1VPU_A 2K7Y_A.
Probab=46.35 E-value=13 Score=31.34 Aligned_cols=20 Identities=5% Similarity=0.469 Sum_probs=16.2
Q ss_pred HHHHHHHHHHHHHHHHHHHH
Q 012361 413 AGLGMISFGVLLCLLLWILY 432 (465)
Q Consensus 413 ~gl~~lS~~~~l~~i~Wi~~ 432 (465)
++++.+.++..+.++.|.+-
T Consensus 7 ~~iialiv~~iiaIvvW~iv 26 (81)
T PF00558_consen 7 LAIIALIVALIIAIVVWTIV 26 (81)
T ss_dssp -HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 47888888888899999883
No 31
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=46.28 E-value=10 Score=35.54 Aligned_cols=8 Identities=25% Similarity=0.638 Sum_probs=3.1
Q ss_pred HHHhCCcc
Q 012361 38 HHCCGWRI 45 (465)
Q Consensus 38 ~~cc~~~~ 45 (465)
++|||++|
T Consensus 97 ~~~Cc~c~ 104 (179)
T PF13908_consen 97 CFCCCCCC 104 (179)
T ss_pred hheecccc
Confidence 33433333
No 32
>KOG3882 consensus Tetraspanin family integral membrane protein [General function prediction only]
Probab=46.25 E-value=63 Score=31.25 Aligned_cols=37 Identities=14% Similarity=0.258 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHH
Q 012361 168 SALITVAALMLLLSIIGLFLSILRHKHAIHIFILSGW 204 (465)
Q Consensus 168 ~~liiva~vml~l~~~glv~~~~~~~~~~~~~~~~gw 204 (465)
..++++.+++++++++|..-++...|+++..+.++..
T Consensus 54 ~ili~~G~v~~~v~flGc~Ga~~es~~lL~~y~~~l~ 90 (237)
T KOG3882|consen 54 YILIAVGGVVFLVGFLGCCGALRESRCLLLSYFILLL 90 (237)
T ss_pred hhhhhhhHHHHHHHHhhhhhhHhhhHHHHHHHHHHHH
Confidence 4457778899999999988877778886655555433
No 33
>COG0598 CorA Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]
Probab=46.03 E-value=1.7e+02 Score=30.03 Aligned_cols=18 Identities=11% Similarity=0.226 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 012361 171 ITVAALMLLLSIIGLFLSILR 191 (465)
Q Consensus 171 iiva~vml~l~~~glv~~~~~ 191 (465)
-+++++++...+ +.|++|
T Consensus 266 Ti~s~iflPpTl---IagiyG 283 (322)
T COG0598 266 TIVSTIFLPPTL---ITGFYG 283 (322)
T ss_pred HHHHHHHHhhHH---HHcccc
Confidence 344444445544 555555
No 34
>PF11884 DUF3404: Domain of unknown function (DUF3404); InterPro: IPR021821 This domain is functionally uncharacterised. This domain is found in bacteria. This presumed domain is about 260 amino acids in length. This domain is found associated with PF02518 from PFAM, PF00512 from PFAM.
Probab=45.14 E-value=15 Score=37.17 Aligned_cols=44 Identities=23% Similarity=0.391 Sum_probs=34.6
Q ss_pred hcCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCcccc
Q 012361 398 SNYCPPLEHYLKIVNAGLGMISFGVLLCLLLWILYANRPQREEV 441 (465)
Q Consensus 398 ~~~C~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~~~r~~~~~~~ 441 (465)
+|.|=.-+.....+...++.+.++.+++++-|.+|.|+.+||+.
T Consensus 218 gNlCw~~~~~s~l~~~~~i~L~~~~i~l~~gw~~y~~~~krre~ 261 (262)
T PF11884_consen 218 GNLCWSEEDHSHLLRISMIALVLANILLVLGWSLYRWNQKRREM 261 (262)
T ss_pred cceeeccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 68898888888877777777777777777889999887666553
No 35
>PF05545 FixQ: Cbb3-type cytochrome oxidase component FixQ; InterPro: IPR008621 This family consists of several Cbb3-type cytochrome oxidase components (FixQ/CcoQ). FixQ is found in nitrogen fixing bacteria. Since nitrogen fixation is an energy-consuming process, effective symbioses depend on operation of a respiratory chain with a high affinity for O2, closely coupled to ATP production. This requirement is fulfilled by a special three-subunit terminal oxidase (cytochrome terminal oxidase cbb3), which was first identified in Bradyrhizobium japonicum as the product of the fixNOQP operon [].
Probab=44.95 E-value=34 Score=25.45 Aligned_cols=18 Identities=11% Similarity=0.403 Sum_probs=11.0
Q ss_pred HHHHHHHHHHHHHHHHHH
Q 012361 415 LGMISFGVLLCLLLWILY 432 (465)
Q Consensus 415 l~~lS~~~~l~~i~Wi~~ 432 (465)
..++..+++++++.|...
T Consensus 14 ~~v~~~~~F~gi~~w~~~ 31 (49)
T PF05545_consen 14 GTVLFFVFFIGIVIWAYR 31 (49)
T ss_pred HHHHHHHHHHHHHHHHHc
Confidence 344555666677777773
No 36
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=44.87 E-value=90 Score=25.71 Aligned_cols=27 Identities=11% Similarity=0.250 Sum_probs=19.2
Q ss_pred chhhhhHHHHHHHHHHHHHHHHHHhhh
Q 012361 128 SAVMDDIDKLNRDLSTAANTLADKTSE 154 (465)
Q Consensus 128 ~~~~~~id~l~~~Lns~A~~i~~k~~~ 154 (465)
..-|..+++++++|...--.+.++...
T Consensus 5 e~E~r~L~eiEr~L~~~DP~fa~~l~~ 31 (82)
T PF11239_consen 5 EHEQRRLEEIERQLRADDPRFAARLRS 31 (82)
T ss_pred HHHHHHHHHHHHHHHhcCcHHHHHhcc
Confidence 345778899999888776666655554
No 37
>PF06103 DUF948: Bacterial protein of unknown function (DUF948); InterPro: IPR009293 This family consists of bacterial sequences several of which are thought to be general stress proteins.
Probab=44.60 E-value=1.8e+02 Score=24.01 Aligned_cols=17 Identities=24% Similarity=0.210 Sum_probs=7.6
Q ss_pred HHHHHHHHHHHHHHHhh
Q 012361 61 ILLIVFTCAAAIGCILL 77 (465)
Q Consensus 61 illilft~~ai~gc~vl 77 (465)
|+.+-|.++++..+.++
T Consensus 5 I~Aiaf~vLvi~l~~~l 21 (90)
T PF06103_consen 5 IAAIAFAVLVIFLIKVL 21 (90)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44444555544443333
No 38
>PF14979 TMEM52: Transmembrane 52
Probab=44.52 E-value=28 Score=32.40 Aligned_cols=34 Identities=18% Similarity=0.222 Sum_probs=18.5
Q ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHhCCcc
Q 012361 10 MQSVGFTGASAFILAVIWFISFGLVLVAHHCCGWRI 45 (465)
Q Consensus 10 waSv~fTg~pgf~iA~~Wfi~fGl~l~~~~cc~~~~ 45 (465)
|.|.-|-+ +.+++++-+++.|+...+..|||.++
T Consensus 16 W~~LWyIw--Lill~~~llLLCG~ta~C~rfCClrk 49 (154)
T PF14979_consen 16 WSSLWYIW--LILLIGFLLLLCGLTASCVRFCCLRK 49 (154)
T ss_pred eehhhHHH--HHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 55555543 34444444444577766666666553
No 39
>PF06084 Cytomega_TRL10: Cytomegalovirus TRL10 protein; InterPro: IPR009284 This family consists of several Cytomegalovirus TRL10 proteins. TRL10 represents a structural component of the virus particle and like the other HCMV envelope glycoproteins, is present in a disulphide-linked complex [].
Probab=44.15 E-value=11 Score=33.67 Aligned_cols=33 Identities=9% Similarity=0.328 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc
Q 012361 408 LKIVNAGLGMISFGVLLCLLLWILYANRPQREE 440 (465)
Q Consensus 408 ~~~v~~gl~~lS~~~~l~~i~Wi~~~r~~~~~~ 440 (465)
+...|-+=-+++.-++|+++|+++|+||+.+..
T Consensus 56 ~ysawgagsfiatliillviffviy~re~~~~~ 88 (150)
T PF06084_consen 56 IYSAWGAGSFIATLIILLVIFFVIYSREEEKNN 88 (150)
T ss_pred hhhhcccchHHHHHHHHHHHhheeEeccccccC
Confidence 334565666777778889999999999865543
No 40
>PF11169 DUF2956: Protein of unknown function (DUF2956); InterPro: IPR021339 This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=44.12 E-value=20 Score=31.31 Aligned_cols=19 Identities=16% Similarity=0.401 Sum_probs=16.6
Q ss_pred HHHHHHHHHHHHHHHHHHH
Q 012361 201 LSGWLLVAITFILCGVFVI 219 (465)
Q Consensus 201 ~~gwilv~~twil~G~~l~ 219 (465)
.+-|+|++++|+-|++|++
T Consensus 84 ~LPW~LL~lSW~gF~~Y~~ 102 (103)
T PF11169_consen 84 WLPWGLLVLSWIGFIAYIF 102 (103)
T ss_pred chhHHHHHHHHHHHHHHHH
Confidence 4569999999999999986
No 41
>PRK09546 zntB zinc transporter; Reviewed
Probab=44.08 E-value=2.8e+02 Score=28.34 Aligned_cols=18 Identities=11% Similarity=0.231 Sum_probs=8.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhc
Q 012361 171 ITVAALMLLLSIIGLFLSILR 191 (465)
Q Consensus 171 iiva~vml~l~~~glv~~~~~ 191 (465)
-+++++++.+. ++.|++|
T Consensus 268 tilt~IflPlT---~IaGiyG 285 (324)
T PRK09546 268 SLMAMVFLPTT---FLTGLFG 285 (324)
T ss_pred HHHHHHHHHHH---HHHhhhc
Confidence 34444444444 4555555
No 42
>PRK10404 hypothetical protein; Provisional
Probab=43.21 E-value=2.2e+02 Score=24.69 Aligned_cols=21 Identities=14% Similarity=0.387 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhh
Q 012361 134 IDKLNRDLSTAANTLADKTSE 154 (465)
Q Consensus 134 id~l~~~Lns~A~~i~~k~~~ 154 (465)
+++...+|....+...+++++
T Consensus 47 L~~ar~~l~~~~~~~~~~~k~ 67 (101)
T PRK10404 47 LDDVKKRVSQASDSYYYRAKQ 67 (101)
T ss_pred HHHHHHHHHHhHHHHHHHHHH
Confidence 333444555555544444433
No 43
>PF12725 DUF3810: Protein of unknown function (DUF3810); InterPro: IPR024294 This family of bacterial proteins is functionally uncharacterised. Proteins in this family are typically between 333 and 377 amino acids in length and contain a conserved HEXXH sequence motif that is characteristic of metallopeptidases. This family may therefore belong to an as yet uncharacterised family of peptidase enzymes.
Probab=41.57 E-value=1.5e+02 Score=30.70 Aligned_cols=26 Identities=31% Similarity=0.455 Sum_probs=18.0
Q ss_pred hHHHHHHhhhhcCCcchHHHHHHHHHHHH
Q 012361 388 FVRDTFQNITSNYCPPLEHYLKIVNAGLG 416 (465)
Q Consensus 388 fVr~~F~~I~~~~C~~L~~~~~~v~~gl~ 416 (465)
.+.|+|-.. +++=.|++.|.++| +|+
T Consensus 291 ~~yd~yLKa-N~q~~G~~SY~~vV--~LL 316 (318)
T PF12725_consen 291 FVYDTYLKA-NNQEDGIKSYSRVV--DLL 316 (318)
T ss_pred HHHHHHHHh-cCchHHHhCHHHHH--HHH
Confidence 556666665 46777888888888 554
No 44
>PF11657 Activator-TraM: Transcriptional activator TraM
Probab=40.75 E-value=3e+02 Score=25.54 Aligned_cols=13 Identities=38% Similarity=0.455 Sum_probs=6.4
Q ss_pred HHHHHHHHHHHHH
Q 012361 171 ITVAALMLLLSII 183 (465)
Q Consensus 171 iiva~vml~l~~~ 183 (465)
..+++++.+++.+
T Consensus 125 nl~aa~~~~~aa~ 137 (144)
T PF11657_consen 125 NLVAAVLVLLAAC 137 (144)
T ss_pred HHHHHHHHHHHHH
Confidence 4455555555443
No 45
>COG4980 GvpP Gas vesicle protein [General function prediction only]
Probab=38.90 E-value=2.2e+02 Score=25.58 Aligned_cols=28 Identities=11% Similarity=-0.053 Sum_probs=17.5
Q ss_pred HHHHHHHHHHHHhhhcccchhhhhhhhh
Q 012361 64 IVFTCAAAIGCILLSVGQDEFHGEAMHT 91 (465)
Q Consensus 64 ilft~~ai~gc~vl~~Gq~kfh~~~~~t 91 (465)
+-..+-+|+|.+..+-...+-..++.+.
T Consensus 9 ~G~liGgiiGa~aaLL~AP~sGkelR~~ 36 (115)
T COG4980 9 FGILIGGIIGAAAALLFAPKSGKELRKK 36 (115)
T ss_pred HHHHHHHHHHHHHHHHhCCcccHHHHHH
Confidence 3444566777766666777776666533
No 46
>PF04210 MtrG: Tetrahydromethanopterin S-methyltransferase, subunit G ; InterPro: IPR005866 This model describes the N5-methyltetrahydromethanopterin: coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranferase is a membrane-associated enzyme complex that uses methyl-transfer reaction to drive a sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of a methyl group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=38.35 E-value=2.1e+02 Score=23.55 Aligned_cols=23 Identities=13% Similarity=0.436 Sum_probs=18.0
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHh
Q 012361 130 VMDDIDKLNRDLSTAANTLADKT 152 (465)
Q Consensus 130 ~~~~id~l~~~Lns~A~~i~~k~ 152 (465)
++..+|.+++++.-...++.+|.
T Consensus 17 i~~rLd~iEeKvEf~~~Ei~Qr~ 39 (70)
T PF04210_consen 17 IMKRLDEIEEKVEFTNAEIAQRA 39 (70)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHH
Confidence 46678888888888888887776
No 47
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=38.14 E-value=18 Score=27.72 Aligned_cols=28 Identities=25% Similarity=0.664 Sum_probs=20.0
Q ss_pred hhhhhhhhhhHHHHHHHHHHHHHHHHHHHHHh
Q 012361 10 MQSVGFTGASAFILAVIWFISFGLVLVAHHCC 41 (465)
Q Consensus 10 waSv~fTg~pgf~iA~~Wfi~fGl~l~~~~cc 41 (465)
|+|+=..| .++|++.|+ .|++++++--|
T Consensus 11 y~tLrigG---Li~A~vlfi-~Gi~iils~kc 38 (50)
T PF02038_consen 11 YETLRIGG---LIFAGVLFI-LGILIILSGKC 38 (50)
T ss_dssp HHHHHHHH---HHHHHHHHH-HHHHHHCTTHH
T ss_pred hhHhhccc---hHHHHHHHH-HHHHHHHcCcc
Confidence 56665555 889999998 69988775443
No 48
>KOG0811 consensus SNARE protein PEP12/VAM3/Syntaxin 7/Syntaxin 17 [Intracellular trafficking, secretion, and vesicular transport]
Probab=38.03 E-value=1.3e+02 Score=30.69 Aligned_cols=17 Identities=12% Similarity=0.354 Sum_probs=11.1
Q ss_pred hhHHHHHHHHHHHHHHH
Q 012361 132 DDIDKLNRDLSTAANTL 148 (465)
Q Consensus 132 ~~id~l~~~Lns~A~~i 148 (465)
+.+|+++..+..+....
T Consensus 208 ~~VDsIe~nve~a~~nv 224 (269)
T KOG0811|consen 208 ELVDSIEANVENASVNV 224 (269)
T ss_pred hHHhHHHHHHHHHHHHH
Confidence 46777777776666663
No 49
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=37.67 E-value=20 Score=33.38 Aligned_cols=33 Identities=15% Similarity=0.339 Sum_probs=15.4
Q ss_pred hhhhhhh-hhhhHHHHHHHHHHHHHHHHHHHHHhCC
Q 012361 9 CMQSVGF-TGASAFILAVIWFISFGLVLVAHHCCGW 43 (465)
Q Consensus 9 YwaSv~f-Tg~pgf~iA~~Wfi~fGl~l~~~~cc~~ 43 (465)
|..++.. |+|.|.+.+.+.++ |++..++.|+|.
T Consensus 53 yi~~~lsgtAIaGIVfgiVfim--gvva~i~icvCm 86 (155)
T PF10873_consen 53 YIGDVLSGTAIAGIVFGIVFIM--GVVAGIAICVCM 86 (155)
T ss_pred hhccccccceeeeeehhhHHHH--HHHHHHHHHHhh
Confidence 3334333 44555555555444 444444445443
No 50
>PF11887 DUF3407: Protein of unknown function (DUF3407); InterPro: IPR024516 This entry represents a domain of unknown function found at the C terminus of many proteins in the mammalian cell entry family.
Probab=36.79 E-value=2.7e+02 Score=27.99 Aligned_cols=36 Identities=17% Similarity=0.231 Sum_probs=19.8
Q ss_pred hhhHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 012361 131 MDDIDKLNRDLSTAANTLADKTSENSAKIRKVFNAV 166 (465)
Q Consensus 131 ~~~id~l~~~Lns~A~~i~~k~~~n~~~I~~~l~~v 166 (465)
+++++.+-..+...+++.++-..+|.+.+.+.++.+
T Consensus 93 ~~~L~~lL~~~~~~a~~~~~~l~~n~~~L~~~~~~L 128 (267)
T PF11887_consen 93 RQQLDALLLSATGLADTGTDFLADNRDNLIRALDDL 128 (267)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 444555555555555555666666655555555543
No 51
>PF03623 Focal_AT: Focal adhesion targeting region; InterPro: IPR005189 Focal adhesion kinase (FAK) is a tyrosine kinase found in focal adhesions, intracellular signalling complexes that are formed following engagement of the extracellular matrix by integrins. The C-terminal "focal adhesion targeting" (FAT) region is necessary and sufficient for localizing FAK to focal adhesions. The crystal structure of FAT shows it forms a four-helix bundle that resembles those found in two other proteins involved in cell adhesion, alpha-catenin and vinculin []. The binding of FAT to the focal adhesion protein, paxillin, requires the integrity of the helical bundle, whereas binding to another focal adhesion protein, talin, does not.; GO: 0004713 protein tyrosine kinase activity, 0004871 signal transducer activity, 0006468 protein phosphorylation, 0007172 signal complex assembly, 0005925 focal adhesion; PDB: 1K05_C 1OW8_C 1OW7_C 3S9O_C 3B71_B 1K04_A 1OW6_C 3GM1_B 3GM3_A 3GM2_A ....
Probab=36.72 E-value=2.5e+02 Score=25.98 Aligned_cols=73 Identities=23% Similarity=0.226 Sum_probs=43.8
Q ss_pred cchhhhhhhhhhhHHh--------ccchHHHHHHHHHHHHHHhhhhhccccc--ccCchhhhhHHHHHHHHHHHHHHHHH
Q 012361 81 QDEFHGEAMHTLKYVV--------NQSDYTVKTLRNVTEYLSLAKTINVAQV--FLPSAVMDDIDKLNRDLSTAANTLAD 150 (465)
Q Consensus 81 q~kfh~~~~~t~~~Vv--------~qad~tv~~lrnvt~~L~~ak~~~v~~~--~lP~~~~~~id~l~~~Lns~A~~i~~ 150 (465)
+|+.+..+..+++-|+ .+.++-+.-+++|...|..--+. ++++ .+|+..+..|+-..+-|++...++.+
T Consensus 8 ~D~Vy~at~~VVkaV~~Ls~~v~~~~~~~y~~~VK~VG~~Lr~Ll~s-Vd~~~~~l~~s~~~EVema~klL~~DM~eLi~ 86 (139)
T PF03623_consen 8 NDKVYDATTGVVKAVMQLSNSVQTAKPEEYVDLVKNVGLALRDLLTS-VDQILPSLPSSVRREVEMAHKLLSKDMAELIS 86 (139)
T ss_dssp THHHHHHHHHHHHHHHHHHHHTTTSSHHHHHHHHHHHHHHHHHHHHH-HHHHGGGSHTTSHHHHHHHHHHHHHHHHHHHH
T ss_pred cChHHHHHHHHHHHHHHHHhhhccCChHHHHHHHHHHHHHHHHHHHH-HHHhhccCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4455555555555442 12445566777777666553322 3322 27888888888888888888777766
Q ss_pred Hhhh
Q 012361 151 KTSE 154 (465)
Q Consensus 151 k~~~ 154 (465)
+.+.
T Consensus 87 ~mkl 90 (139)
T PF03623_consen 87 AMKL 90 (139)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 5543
No 52
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=34.22 E-value=3.2e+02 Score=23.83 Aligned_cols=20 Identities=15% Similarity=0.308 Sum_probs=11.4
Q ss_pred hhhHHHHHHHHHHHHHHHHH
Q 012361 131 MDDIDKLNRDLSTAANTLAD 150 (465)
Q Consensus 131 ~~~id~l~~~Lns~A~~i~~ 150 (465)
|...+.++++|+-+.+++.+
T Consensus 34 q~~qe~v~~kld~tlD~i~r 53 (98)
T PF11166_consen 34 QHDQELVNQKLDRTLDEINR 53 (98)
T ss_pred HhhHHHHHHHHHhhHHHHHH
Confidence 34445556666666666644
No 53
>PLN03094 Substrate binding subunit of ER-derived-lipid transporter; Provisional
Probab=33.05 E-value=1.3e+02 Score=32.04 Aligned_cols=66 Identities=11% Similarity=0.287 Sum_probs=42.0
Q ss_pred hHHHHHHHHHHHHHHhhhhhccccc----ccCc---hhhhhHHHHH---HHHHHHHHHHHHHhhh--hHHHHHHHHHHH
Q 012361 100 DYTVKTLRNVTEYLSLAKTINVAQV----FLPS---AVMDDIDKLN---RDLSTAANTLADKTSE--NSAKIRKVFNAV 166 (465)
Q Consensus 100 d~tv~~lrnvt~~L~~ak~~~v~~~----~lP~---~~~~~id~l~---~~Lns~A~~i~~k~~~--n~~~I~~~l~~v 166 (465)
..++++++.++..|.++.. ++.++ ..|. ..++.++.+. +++++.+.+++.-+.+ +.+.+|+.++++
T Consensus 289 ~~lL~Nle~lt~~LA~as~-~l~~l~~~l~~p~~~~~L~qtl~sl~~t~~ni~~vs~dv~~ft~D~~~r~~Lr~li~~L 366 (370)
T PLN03094 289 SGLLKEVEKLTRVAAEASE-DLRRLNSSILTPENTELLRQSIYTLTKTLKHIESISSDISGFTGDEATRRNLKQLIQSL 366 (370)
T ss_pred hhHHHHHHHHHHHHHHHHH-HHHHHHHhhcCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence 4667777777777766532 33332 2232 2355666655 7888888888888888 666777776664
No 54
>PF07043 DUF1328: Protein of unknown function (DUF1328); InterPro: IPR009760 This entry represents several hypothetical bacterial proteins of around 50 residues in length. The function of this family is unknown but is thought to be a membrane protein.; GO: 0005886 plasma membrane
Probab=33.00 E-value=55 Score=23.88 Aligned_cols=25 Identities=24% Similarity=0.408 Sum_probs=20.4
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHHHH
Q 012361 12 SVGFTGASAFILAVIWFISFGLVLVA 37 (465)
Q Consensus 12 Sv~fTg~pgf~iA~~Wfi~fGl~l~~ 37 (465)
-.||+|+.+.+...++++ |.+++.+
T Consensus 12 ~lGF~Giag~a~~iAkiL-f~iflvl 36 (39)
T PF07043_consen 12 VLGFGGIAGTAAGIAKIL-FFIFLVL 36 (39)
T ss_pred HcCcccHHHHHHHHHHHH-HHHHHHH
Confidence 368999999999999988 6666654
No 55
>PF11241 DUF3043: Protein of unknown function (DUF3043); InterPro: IPR021403 Some members in this family of proteins with unknown function are annotated as membrane proteins. This cannot be confirmed.
Probab=32.80 E-value=1.7e+02 Score=27.92 Aligned_cols=24 Identities=13% Similarity=0.380 Sum_probs=12.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 196 IHIFILSGWLLVAITFILCGVFVI 219 (465)
Q Consensus 196 ~~~~~~~gwilv~~twil~G~~l~ 219 (465)
+..++.++|+.+++.+++=|+++.
T Consensus 100 ~~~~~~~~~~~~~~~~iid~~~l~ 123 (170)
T PF11241_consen 100 VQLYVTLAMYVLLLLVIIDGVILG 123 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 334444445555566666665543
No 56
>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=31.94 E-value=15 Score=33.27 Aligned_cols=31 Identities=29% Similarity=0.226 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhcCCCccccccc
Q 012361 414 GLGMISFGVLLCLLLWILYANRPQREEVFVN 444 (465)
Q Consensus 414 gl~~lS~~~~l~~i~Wi~~~r~~~~~~~~~~ 444 (465)
++.++|+++++.++.=+++.||.||||.+..
T Consensus 82 ~~sal~v~lVl~llsg~lv~rrcrrr~~~tt 112 (129)
T PF12191_consen 82 LGSALSVVLVLALLSGFLVWRRCRRREKFTT 112 (129)
T ss_dssp -------------------------------
T ss_pred hhhHHHHHHHHHHHHHHHHHhhhhccccCCC
Confidence 4555566666555444455555577776665
No 57
>KOG2662 consensus Magnesium transporters: CorA family [Inorganic ion transport and metabolism]
Probab=31.65 E-value=3e+02 Score=29.86 Aligned_cols=22 Identities=14% Similarity=0.215 Sum_probs=15.9
Q ss_pred HHHHHHHHHHHHHHHHHHhhch
Q 012361 171 ITVAALMLLLSIIGLFLSILRH 192 (465)
Q Consensus 171 iiva~vml~l~~~glv~~~~~~ 192 (465)
+.+.+.++.+++-+++.+++|.
T Consensus 350 L~Lt~gT~~~s~~~~va~ifGM 371 (414)
T KOG2662|consen 350 LLLTIGTFCLSVFSVVAGIFGM 371 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHhcC
Confidence 4455566777777888888884
No 58
>PF03172 Sp100: Sp100 domain; InterPro: IPR004865 The Sp100 and promyelocytic leukemia proteins (PML) are constituents of nuclear domains, known as nuclear dots (NDs or NBs - nuclear bodies or PML bodies), and are both covalently modified by the small ubiquitin-related protein SUMO-1. NBs play a role in autoimmunity, virus infections, and in the etiology of acute promyelocytic leukemia []. A functional nuclear localization signal and an NB-targeting region that coincides with an Sp100 homodimerization domain have been mapped. Sequences similar to the Sp100 homodimerization/ND-targeting region occur in several other proteins, which include the autoimmune regulator proteins (AIRE) and other numerous other transiently or permanently localised proteins. PML is expressed as a family of isoforms (PML I-VII) as a result of alternative splicing, most of which are found in the nucleus. Although there are many other functions of PML NBs in a wide range of cellular pathways, there is accumulating evidence that they represent preferential targets for viral infections and that PML plays a role in the mechanism of the antiviral action of interferon []. The Sp100 domain is usually found at the amino terminus of proteins that contain a SAND domain IPR000770 from INTERPRO. ; GO: 0005634 nucleus
Probab=31.34 E-value=23 Score=31.06 Aligned_cols=59 Identities=20% Similarity=0.268 Sum_probs=46.9
Q ss_pred HHHHHHHHhhhcccccCCCChhHHHHHHhhhhcCCcchHHHHHHHHHHHHHHHHHHHHH
Q 012361 367 VTEIYALQLYTPRLLSLQDCNFVRDTFQNITSNYCPPLEHYLKIVNAGLGMISFGVLLC 425 (465)
Q Consensus 367 ~n~~~~L~~~~P~l~~L~~C~fVr~~F~~I~~~~C~~L~~~~~~v~~gl~~lS~~~~l~ 425 (465)
+..++++.+-.|+|+.|.|..|+-+.--.-+.+-|..+.+--+-+|.-|-=+--..-.+
T Consensus 15 vEIa~AI~kpFPfl~gLrD~~~ItE~~y~e~~e~crnlvpv~rvvY~vLs~Lek~f~~~ 73 (103)
T PF03172_consen 15 VEIAYAITKPFPFLEGLRDHSFITEQMYKESQEACRNLVPVQRVVYNVLSWLEKTFIRS 73 (103)
T ss_pred HHHHHHHcccchHHHHhhhcccccHHHHHHHHHHHhccccHHHHHHHHHHHHHHHhhHH
Confidence 45566788899999999999999987555556899999999998888777666555444
No 59
>PF14235 DUF4337: Domain of unknown function (DUF4337)
Probab=30.56 E-value=4.5e+02 Score=24.53 Aligned_cols=36 Identities=19% Similarity=0.242 Sum_probs=22.8
Q ss_pred CchhhhhHHHHH---HHHHHHHHHHHHHhhhhHHHHHHH
Q 012361 127 PSAVMDDIDKLN---RDLSTAANTLADKTSENSAKIRKV 162 (465)
Q Consensus 127 P~~~~~~id~l~---~~Lns~A~~i~~k~~~n~~~I~~~ 162 (465)
+...+..|++-+ .++.+.++++..++++.-.+-++.
T Consensus 68 ~~~~~~~i~~Y~~~~~~~~~e~~~l~~~A~~~e~~~d~~ 106 (157)
T PF14235_consen 68 RAAYQKKIARYKKEKARYKSEAEELEAKAKEAEAESDHA 106 (157)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHH
Confidence 345566666644 577788888888876644444443
No 60
>PRK01919 tatB sec-independent translocase; Provisional
Probab=30.46 E-value=3.4e+02 Score=25.97 Aligned_cols=33 Identities=18% Similarity=0.367 Sum_probs=20.8
Q ss_pred hHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHH
Q 012361 133 DIDKLNRDLSTAANTLADKTSENSAKIRKVFNA 165 (465)
Q Consensus 133 ~id~l~~~Lns~A~~i~~k~~~n~~~I~~~l~~ 165 (465)
.+.+...++.+++.++.+...++.+..++-++.
T Consensus 58 Elrk~~~~~e~~~~~v~~si~~~~~~~~~~~~~ 90 (169)
T PRK01919 58 ELRKMKTDFESAARDVENTIHDNLSEHESDLND 90 (169)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHH
Confidence 444455666667777766666666666665554
No 61
>PF06687 SUR7: SUR7/PalI family; InterPro: IPR009571 This family consists of several fungal-specific SUR7 proteins. Its activity regulates expression of RVS161, a homologue of human endophilin, suggesting a function for both in endocytosis [, ]. The protein carries four transmembrane domains and is thus likely to act as an anchoring protein for the eisosome to the plasma membrane. Eisosomes are the immobile protein complexes, that include the proteins Pil1 and Lsp1, which co-localise with sites of protein and lipid endocytosis at the plasma membrane. SUR7 protein may play a role in sporulation []. Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. This family also includes PalI which is part of a pH signal transduction cascade. Based on the similarity of PalI to the yeast Rim9 meiotic signal transduction component it has been suggested that PalI might be a membrane sensor for ambient pH [].
Probab=30.39 E-value=4.6e+02 Score=24.54 Aligned_cols=36 Identities=11% Similarity=0.128 Sum_probs=16.9
Q ss_pred HHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 146 NTLADKTSENSAKIRKVFNAVRSALITVAALMLLLSI 182 (465)
Q Consensus 146 ~~i~~k~~~n~~~I~~~l~~v~~~liiva~vml~l~~ 182 (465)
..+.+...++.+.+++.++.+... ..++.+..++++
T Consensus 97 ~~l~~~~~~~~~~~~~~~~~~~~l-~~ia~~~t~l~~ 132 (212)
T PF06687_consen 97 LGLPSSLRSALDYYNNLLKAMFIL-YPIAIVFTFLAL 132 (212)
T ss_pred ccCCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 334445555555666665554332 333433333333
No 62
>PRK01026 tetrahydromethanopterin S-methyltransferase subunit G; Provisional
Probab=30.22 E-value=3.3e+02 Score=22.81 Aligned_cols=25 Identities=4% Similarity=0.274 Sum_probs=18.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhhh
Q 012361 130 VMDDIDKLNRDLSTAANTLADKTSE 154 (465)
Q Consensus 130 ~~~~id~l~~~Lns~A~~i~~k~~~ 154 (465)
.+..+|.+++++.-+..++.++.-+
T Consensus 20 i~~rLD~iEeKVEftn~Ei~Qr~Gk 44 (77)
T PRK01026 20 IQKRLDEIEEKVEFTNAEIFQRIGK 44 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 4677778888888888887777633
No 63
>KOG3882 consensus Tetraspanin family integral membrane protein [General function prediction only]
Probab=29.72 E-value=1.6e+02 Score=28.44 Aligned_cols=43 Identities=30% Similarity=0.250 Sum_probs=24.9
Q ss_pred CCchhHHHHHHHHHHHHHHHHHHHHhhhcccchhhhhhh-hhhh
Q 012361 51 ESASSQRICLILLIVFTCAAAIGCILLSVGQDEFHGEAM-HTLK 93 (465)
Q Consensus 51 ~S~~~~~~slillilft~~ai~gc~vl~~Gq~kfh~~~~-~t~~ 93 (465)
.|+.....-.++++++.++=+++++..+.-.+++.++.. +.++
T Consensus 77 es~~lL~~y~~~l~l~~i~e~~~~i~~~~~~~~l~~~~~~~~~~ 120 (237)
T KOG3882|consen 77 ESRCLLLSYFILLLLLFIAELAAGILAFVFRDSLRDELEEQLLK 120 (237)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHhheeHHHHHHHHHHHHHH
Confidence 344444444444455555667777777767777777765 3433
No 64
>TIGR01149 mtrG N5-methyltetrahydromethanopterin:coenzyme M methyltransferase subunit G. coenzyme M methyltransferase subunit G in methanogenic archaea. This methyltranfersae is membrane-associated enzyme complex that uses methyl-transfer reaction to drive sodium-ion pump. Archaea have evolved energy-yielding pathways marked by one-carbon biochemistry featuring novel cofactors and enzymes. This transferase is involved in the transfer of 'methyl' group from N5-methyltetrahydromethanopterin to coenzyme M. In an accompanying reaction, methane is produced by two-electron reduction of the methyl moiety in methyl-coenzyme M by another enzyme methyl-coenzyme M reductase.
Probab=29.44 E-value=3.2e+02 Score=22.44 Aligned_cols=25 Identities=16% Similarity=0.400 Sum_probs=18.4
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHhhh
Q 012361 130 VMDDIDKLNRDLSTAANTLADKTSE 154 (465)
Q Consensus 130 ~~~~id~l~~~Lns~A~~i~~k~~~ 154 (465)
++..+|.+++++.-...++.++.-+
T Consensus 17 i~~rLd~iEeKVEf~~~E~~Qr~Gk 41 (70)
T TIGR01149 17 VMKRLDEIEEKVEFVNGEVAQRIGK 41 (70)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhH
Confidence 4677788888888888887776633
No 65
>PRK11281 hypothetical protein; Provisional
Probab=29.43 E-value=6.9e+02 Score=30.65 Aligned_cols=49 Identities=24% Similarity=0.505 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhch-hhH-HHHHHHHHHHHH
Q 012361 156 SAKIRKVFNAVRSALITVAALMLLLSIIGLFLSILRH-KHA-IHIFILSGWLLV 207 (465)
Q Consensus 156 ~~~I~~~l~~v~~~liiva~vml~l~~~glv~~~~~~-~~~-~~~~~~~gwilv 207 (465)
.+.+++ .++..++.+..++.+++++|.......+ .++ ..++++++|+++
T Consensus 681 ~~~~~~---~~~~~l~~~P~~l~~l~~~GY~yTa~~l~~~l~~s~~l~~~~~l~ 731 (1113)
T PRK11281 681 SHTLRL---VVRTVLTIAPIALIVLVVLGYYYTALRLIGRLIETLYLLIIWNLL 731 (1113)
T ss_pred chHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555 3455556655566677778887765552 333 344444566654
No 66
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=29.40 E-value=2.7e+02 Score=27.76 Aligned_cols=16 Identities=13% Similarity=0.127 Sum_probs=8.5
Q ss_pred Cccccccchhhccccc
Q 012361 319 SYEVSIANASKVWQNY 334 (465)
Q Consensus 319 ~gev~i~na~~v~~~~ 334 (465)
.|+|++..+..-..++
T Consensus 165 egQVpL~kL~~~l~KL 180 (224)
T PF13829_consen 165 EGQVPLRKLQKTLMKL 180 (224)
T ss_pred CCceeHHHHHHHHHhC
Confidence 4566666665544333
No 67
>COG4575 ElaB Uncharacterized conserved protein [Function unknown]
Probab=28.55 E-value=2.7e+02 Score=24.55 Aligned_cols=17 Identities=18% Similarity=0.241 Sum_probs=9.2
Q ss_pred hHHHHHHHHHHHHHHhh
Q 012361 100 DYTVKTLRNVTEYLSLA 116 (465)
Q Consensus 100 d~tv~~lrnvt~~L~~a 116 (465)
+..-+-|+.+++.+|+.
T Consensus 11 ~~l~~el~~L~d~lEev 27 (104)
T COG4575 11 DQLLAELQELLDTLEEV 27 (104)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 44445555566665553
No 68
>PF07344 Amastin: Amastin surface glycoprotein; InterPro: IPR009944 This family contains the eukaryotic surface glycoprotein amastin (approximately 180 residues long).In Trypanosoma cruzi, amastin is particularly abundant during the amastigote stage.
Probab=28.22 E-value=3.8e+02 Score=24.63 Aligned_cols=34 Identities=12% Similarity=0.184 Sum_probs=24.2
Q ss_pred chhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhH
Q 012361 191 RHKHAIHIFILSGWLLVAITFILCGVFVILNNAISDTCM 229 (465)
Q Consensus 191 ~~~~~~~~~~~~gwilv~~twil~G~~l~l~~~~~DtC~ 229 (465)
.+|.....+.+++++...++|.+.-.-+- ++.|.
T Consensus 92 ~~r~v~l~L~~~~~~~~~v~wa~~v~~Y~-----~~~C~ 125 (155)
T PF07344_consen 92 CLRWVCLVLNIVGIVTLLVVWALMVVVYY-----GGFCG 125 (155)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHHHc-----cCCCc
Confidence 35666777888888888888876544333 88885
No 69
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=27.28 E-value=3.2e+02 Score=24.46 Aligned_cols=26 Identities=23% Similarity=0.432 Sum_probs=15.3
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 193 KHAIHIFILSGWLLVAITFILCGVFVILN 221 (465)
Q Consensus 193 ~~~~~~~~~~gwilv~~twil~G~~l~l~ 221 (465)
+-++.+|.++|.+.+.++ .++|+.+.
T Consensus 36 ~~im~ifmllG~L~~l~S---~~VYfwIG 61 (114)
T PF11023_consen 36 PIIMVIFMLLGLLAILAS---TAVYFWIG 61 (114)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHhh
Confidence 446677777776655544 44555544
No 70
>PF07062 Clc-like: Clc-like; InterPro: IPR010761 Clc proteins are a nine-member gene family of chloride channels that have diverse roles in the plasma membrane and in intracellular organelles, especially membrane excitability and the maintenance of osmotic balance [, ]. This family contains a number of Clc-like proteins that are approximately 250 residues long and their homologues. ; GO: 0016021 integral to membrane
Probab=27.16 E-value=3.5e+02 Score=26.59 Aligned_cols=56 Identities=13% Similarity=0.339 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhc--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012361 168 SALITVAALMLLLSIIGLFLSILR--HKHAIHIFILSGWLLVAITFILCGVFVILNNA 223 (465)
Q Consensus 168 ~~liiva~vml~l~~~glv~~~~~--~~~~~~~~~~~gwilv~~twil~G~~l~l~~~ 223 (465)
++.++...+-++++++.++++++. .++...++.++..+.+.++-+-.++|++-.+-
T Consensus 105 ~AvLil~~~s~lf~~lsi~~~iCa~c~~~~ai~~~v~~~ia~l~S~~g~~iF~~~a~~ 162 (211)
T PF07062_consen 105 KAVLILISFSMLFALLSICFGICAPCHPSFAIFYTVLVFIAALLSLIGLGIFFFNAHM 162 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhhcCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 343444444455666677777765 34445555555666667777777777776654
No 71
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=27.11 E-value=59 Score=28.16 Aligned_cols=11 Identities=18% Similarity=0.247 Sum_probs=4.6
Q ss_pred hhhhhHHHHHH
Q 012361 15 FTGASAFILAV 25 (465)
Q Consensus 15 fTg~pgf~iA~ 25 (465)
|+.-|.|..++
T Consensus 38 ~~ayWpyLA~G 48 (98)
T PF07204_consen 38 FVAYWPYLAAG 48 (98)
T ss_pred HHhhhHHhhcc
Confidence 34444444443
No 72
>PRK13726 conjugal transfer pilus assembly protein TraE; Provisional
Probab=26.92 E-value=2.1e+02 Score=27.52 Aligned_cols=38 Identities=16% Similarity=0.185 Sum_probs=24.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhhhcccchhhhhhhhh
Q 012361 54 SSQRICLILLIVFTCAAAIGCILLSVGQDEFHGEAMHT 91 (465)
Q Consensus 54 ~~~~~slillilft~~ai~gc~vl~~Gq~kfh~~~~~t 91 (465)
+-.++.++++..+..+.+++++++-..+-+++++-..+
T Consensus 11 ~~~~~~~~~l~~l~~~~~~~~v~l~~~~~~~~~~q~~v 48 (188)
T PRK13726 11 RVMAIAFIFLSVLIVLSLSVNVIQGVNNYRLQNEQRTA 48 (188)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCcEEE
Confidence 45556677666666777778877766666666554333
No 73
>PRK08578 preprotein translocase subunit SecF; Reviewed
Probab=26.78 E-value=4.2e+02 Score=27.03 Aligned_cols=20 Identities=10% Similarity=0.104 Sum_probs=8.5
Q ss_pred chhHHHHHHHHHHHHHHHHH
Q 012361 53 ASSQRICLILLIVFTCAAAI 72 (465)
Q Consensus 53 ~~~~~~slillilft~~ai~ 72 (465)
++.+++.+.+-+++.+++++
T Consensus 10 ~~~~k~~~~is~~l~~~~~~ 29 (292)
T PRK08578 10 KYSNRQLIAIPLAVLLLSLL 29 (292)
T ss_pred hcCchhHHHHHHHHHHHHHH
Confidence 33444444444444444443
No 74
>PF11166 DUF2951: Protein of unknown function (DUF2951); InterPro: IPR021337 This family of proteins has no known function. It has a highly conserved sequence.
Probab=26.71 E-value=4e+02 Score=23.20 Aligned_cols=9 Identities=33% Similarity=0.564 Sum_probs=4.5
Q ss_pred hhhHHHHHH
Q 012361 153 SENSAKIRK 161 (465)
Q Consensus 153 ~~n~~~I~~ 161 (465)
++|.+.|++
T Consensus 63 ~~n~Knir~ 71 (98)
T PF11166_consen 63 KKNDKNIRD 71 (98)
T ss_pred HHHHhhHHH
Confidence 344445665
No 75
>PF10498 IFT57: Intra-flagellar transport protein 57 ; InterPro: IPR019530 Eukaryotic cilia and flagella are specialised organelles found at the periphery of cells of diverse organisms. Intra-flagellar transport (IFT) is required for the assembly and maintenance of eukaryotic cilia and flagella, and consists of the bi-directional movement of large protein particles between the base and the distal tip of the organelle. IFT particles contain multiple copies of two distinct protein complexes, A and B, which contain at least 6 and 11 protein subunits. IFT57 is part of complex B but is not, however, required for the core subunits to stay associated []. This protein is known as Huntington-interacting protein-1 in humans.
Probab=26.68 E-value=1.5e+02 Score=31.34 Aligned_cols=85 Identities=19% Similarity=0.327 Sum_probs=50.9
Q ss_pred chhhhhhhhhhh-------HHhccchHHHHHHHHHHHHHHhhhhhcccccccC-chhhhhHHHHHHHHHHHHHHHHHHhh
Q 012361 82 DEFHGEAMHTLK-------YVVNQSDYTVKTLRNVTEYLSLAKTINVAQVFLP-SAVMDDIDKLNRDLSTAANTLADKTS 153 (465)
Q Consensus 82 ~kfh~~~~~t~~-------~Vv~qad~tv~~lrnvt~~L~~ak~~~v~~~~lP-~~~~~~id~l~~~Lns~A~~i~~k~~ 153 (465)
+|+|.+..+++| ||=+|-...++..|...+.|+.++.. -.+..-- ......+..+..+|...-.++.+|..
T Consensus 244 ~kl~~~i~~~lekI~sREk~iN~qle~l~~eYr~~~~~ls~~~~~-y~~~s~~V~~~t~~L~~IseeLe~vK~emeerg~ 322 (359)
T PF10498_consen 244 DKLQQDISKTLEKIESREKYINNQLEPLIQEYRSAQDELSEVQEK-YKQASEGVSERTRELAEISEELEQVKQEMEERGS 322 (359)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHH-HHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 567888888877 66777778888888888877775532 1111100 11233455555666666666666543
Q ss_pred h---hHH--HHHHHHHHHH
Q 012361 154 E---NSA--KIRKVFNAVR 167 (465)
Q Consensus 154 ~---n~~--~I~~~l~~v~ 167 (465)
+ ++- +|++++..++
T Consensus 323 ~mtD~sPlv~IKqAl~kLk 341 (359)
T PF10498_consen 323 SMTDGSPLVKIKQALTKLK 341 (359)
T ss_pred CCCCCCHHHHHHHHHHHHH
Confidence 3 333 7888777665
No 76
>PRK02935 hypothetical protein; Provisional
Probab=26.64 E-value=4.6e+02 Score=23.32 Aligned_cols=28 Identities=25% Similarity=0.377 Sum_probs=17.8
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Q 012361 193 KHAIHIFILSGWLLVAITFILCGVFVILNNA 223 (465)
Q Consensus 193 ~~~~~~~~~~gwilv~~twil~G~~l~l~~~ 223 (465)
+-++.+|.++|.+++.++ +++|+-+...
T Consensus 37 ~~~m~ifm~~G~l~~l~S---~vvYFwiGml 64 (110)
T PRK02935 37 IIIMTIFMLLGFLAVIAS---TVVYFWIGML 64 (110)
T ss_pred HHHHHHHHHHHHHHHHHH---HHHHHHHhhh
Confidence 345667777777777655 5666666543
No 77
>PF10267 Tmemb_cc2: Predicted transmembrane and coiled-coil 2 protein; InterPro: IPR019394 This family of transmembrane coiled-coil containing proteins is conserved from worms to humans. Its function is unknown.
Probab=26.51 E-value=4.6e+02 Score=28.33 Aligned_cols=9 Identities=33% Similarity=-0.071 Sum_probs=4.4
Q ss_pred HHHHHHHHH
Q 012361 203 GWLLVAITF 211 (465)
Q Consensus 203 gwilv~~tw 211 (465)
.+++.++.|
T Consensus 381 ~v~l~~~~~ 389 (395)
T PF10267_consen 381 LVGLGAILW 389 (395)
T ss_pred HHHHHHHHH
Confidence 344555554
No 78
>PF10233 Cg6151-P: Uncharacterized conserved protein CG6151-P; InterPro: IPR019365 This is a family of small, less than 200 residue long, proteins which are conserved from fungi to humans. The function of these proteins are unknown. The entry contains Golgi membrane proteins involved in vesicular trafficking that belong to the TVP18 family and the calcium channel flower protein from Drosophila. The flower proteins are calcium channels that regulates synaptic endocytosis and hence couples exo- with endocytosis. Isoform A and isoform B are mainly required in the nervous system and necessary in photoreceptor cells [].
Probab=26.30 E-value=1.8e+02 Score=25.91 Aligned_cols=32 Identities=16% Similarity=0.048 Sum_probs=19.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHH--HHHhCCcccC
Q 012361 16 TGASAFILAVIWFISFGLVLVA--HHCCGWRINI 47 (465)
Q Consensus 16 Tg~pgf~iA~~Wfi~fGl~l~~--~~cc~~~~~~ 47 (465)
+--+.-.++++|-+..|++++. .=+||+.|+.
T Consensus 19 ~~~~~cii~gi~~i~~gfvv~~iE~P~l~~~c~~ 52 (113)
T PF10233_consen 19 SFSPVCIIFGIIMIVSGFVVLFIEAPFLCRICPF 52 (113)
T ss_pred cccHHHHHHHHHHHHHHHHHHHHHHhHHHHhCCc
Confidence 3334447788888877777776 3445566653
No 79
>PF06749 DUF1218: Protein of unknown function (DUF1218); InterPro: IPR009606 This family contains hypothetical plant proteins of unknown function. Family members contain a number of conserved cysteine residues.
Probab=26.18 E-value=1.6e+02 Score=25.05 Aligned_cols=31 Identities=13% Similarity=0.157 Sum_probs=15.7
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcccchhhhhh
Q 012361 58 ICLILLIVFTCAAAIGCILLSVGQDEFHGEA 88 (465)
Q Consensus 58 ~slillilft~~ai~gc~vl~~Gq~kfh~~~ 88 (465)
+..+++++-=+..+++-+.+++|..+=+.++
T Consensus 36 ~a~~~~v~SWi~f~ia~~~ll~ga~~n~~~~ 66 (97)
T PF06749_consen 36 LAVVFFVLSWIVFIIAEALLLAGASMNARHT 66 (97)
T ss_pred hhhhhHHHHHHHHHHHHHHHHHHHhcccccc
Confidence 3333333333444556677777765544443
No 80
>TIGR03141 cytochro_ccmD heme exporter protein CcmD. The model for this protein family describes a small, hydrophobic, and only moderately well-conserved protein, tricky to identify accurately for all of these reasons. However, members are found as part of large operons involved in heme export across the inner membrane for assembly of c-type cytochromes in a large number of bacteria. The gray zone between the trusted cutoff (13.0) and noise cutoff (4.75) includes both low-scoring examples and false-positive matches to hydrophobic domains of longer proteins.
Probab=26.02 E-value=46 Score=24.56 Aligned_cols=33 Identities=30% Similarity=0.425 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCccc
Q 012361 407 YLKIVNAGLGMISFGVLLCLLLWILYANRPQREE 440 (465)
Q Consensus 407 ~~~~v~~gl~~lS~~~~l~~i~Wi~~~r~~~~~~ 440 (465)
|--.||.+..+-.+. +..+++|....|++.+++
T Consensus 4 y~~yVW~sYg~t~l~-l~~li~~~~~~~r~~~~~ 36 (45)
T TIGR03141 4 YAFYVWLAYGITALV-LAGLILWSLLDRRRLLRE 36 (45)
T ss_pred ccHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence 445678888774444 456677887555434443
No 81
>PF01442 Apolipoprotein: Apolipoprotein A1/A4/E domain; InterPro: IPR000074 Exchangeable apolipoproteins (apoA, apoC and apoE) have the same genomic structure and are members of a multi-gene family that probably evolved from a common ancestral gene. This entry includes the ApoA1, ApoA4 and ApoE proteins. ApoA1 and ApoA4 are part of the APOA1/C3/A4/A5 gene cluster on chromosome 11 []. Apolipoproteins function in lipid transport as structural components of lipoprotein particles, cofactors for enzymes and ligands for cell-surface receptors. In particular, apoA1 is the major protein component of high-density lipoproteins; apoA4 is thought to act primarily in intestinal lipid absorption; and apoE is a blood plasma protein that mediates the transport and uptake of cholesterol and lipid by way of its high affinity interaction with different cellular receptors, including the low-density lipoprotein (LDL) receptor. Recent findings with apoA1 and apoE suggest that the tertiary structures of these two members of the human exchangeable apolipoprotein gene family are related []. The three-dimensional structure of the LDL receptor-binding domain of apoE indicates that the protein forms an unusually elongated four-helix bundle that may be stabilised by a tightly packed hydrophobic core that includes leucine zipper-type interactions and by numerous salt bridges on the mostly charged surface. Basic amino acids important for LDL receptor binding are clustered into a surface patch on one long helix [].; GO: 0008289 lipid binding, 0006869 lipid transport, 0042157 lipoprotein metabolic process, 0005576 extracellular region; PDB: 1YA9_A 3S84_A 1NFN_A 1LE2_A 1B68_A 1BZ4_A 1OEG_A 2L7B_A 1LE4_A 1EA8_A ....
Probab=25.43 E-value=3.9e+02 Score=23.98 Aligned_cols=24 Identities=21% Similarity=0.462 Sum_probs=9.5
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHH
Q 012361 137 LNRDLSTAANTLADKTSENSAKIR 160 (465)
Q Consensus 137 l~~~Lns~A~~i~~k~~~n~~~I~ 160 (465)
+...|.+....+.+........++
T Consensus 72 ~~~~l~~~~~~~~~~l~~~~~~~~ 95 (202)
T PF01442_consen 72 LKNSLDSSTSELDESLSERAEELK 95 (202)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhHHHHHHHHHHHH
Confidence 333444444444443333333333
No 82
>PF13244 DUF4040: Domain of unknown function (DUF4040)
Probab=25.30 E-value=37 Score=27.47 Aligned_cols=27 Identities=22% Similarity=0.436 Sum_probs=23.7
Q ss_pred CCccchhhhhhhhhhhHHHHHHHHHHH
Q 012361 4 IFSSLCMQSVGFTGASAFILAVIWFIS 30 (465)
Q Consensus 4 i~~~hYwaSv~fTg~pgf~iA~~Wfi~ 30 (465)
+..|++..++...|+-|+.++..|.+.
T Consensus 12 ~~~~~~l~avi~~~~~g~~~al~f~~l 38 (70)
T PF13244_consen 12 VFSRSRLAAVIALGVFGFLIALLFVLL 38 (70)
T ss_pred HHHhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 356899999999999999999999873
No 83
>PRK11677 hypothetical protein; Provisional
Probab=24.69 E-value=5.5e+02 Score=23.54 Aligned_cols=25 Identities=20% Similarity=0.319 Sum_probs=15.5
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccch
Q 012361 59 CLILLIVFTCAAAIGCILLSVGQDE 83 (465)
Q Consensus 59 slillilft~~ai~gc~vl~~Gq~k 83 (465)
+++.++.|.+.+++|.++.-.++.+
T Consensus 3 W~~a~i~livG~iiG~~~~R~~~~~ 27 (134)
T PRK11677 3 WEYALIGLVVGIIIGAVAMRFGNRK 27 (134)
T ss_pred HHHHHHHHHHHHHHHHHHHhhccch
Confidence 3455677777777777766554444
No 84
>PF02203 TarH: Tar ligand binding domain homologue; InterPro: IPR003122 Methyl-accepting chemotaxis proteins (MCPs) are a family of bacterial receptors that mediate chemotaxis to diverse signals, responding to changes in the concentration of attractants and repellents in the environment by altering swimming behaviour []. Environmental diversity gives rise to diversity in bacterial signalling receptors, and consequently there are many genes encoding MCPs []. For example, there are four well-characterised MCPs found in Escherichia coli: Tar (taxis towards aspartate and maltose, away from nickel and cobalt), Tsr (taxis towards serine, away from leucine, indole and weak acids), Trg (taxis towards galactose and ribose) and Tap (taxis towards dipeptides). MCPs share similar topology and signalling mechanisms. MCPs either bind ligands directly or interact with ligand-binding proteins, transducing the signal to downstream signalling proteins in the cytoplasm. MCPs undergo two covalent modifications: deamidation and reversible methylation at a number of glutamate residues. Attractants increase the level of methylation, while repellents decrease it. The methyl groups are added by the methyl-transferase cheR and are removed by the methylesterase cheB. Most MCPs are homodimers that contain the following organisation: an N-terminal signal sequence that acts as a transmembrane domain in the mature protein; a poorly-conserved periplasmic receptor (ligand-binding) domain; a second transmembrane domain; and a highly-conserved C-terminal cytoplasmic domain that interacts with downstream signalling components. The C-terminal domain contains the glycosylated glutamate residues. This entry represents the ligand-binding domain found in a number of methyl-accepting chemotaxis receptors.; GO: 0004888 transmembrane signaling receptor activity, 0006935 chemotaxis, 0007165 signal transduction, 0016020 membrane; PDB: 2ASR_A 3ATP_A 2D4U_A 2LIG_A 1VLS_A 1LIH_A 1WAT_B 1VLT_B 1WAS_A 1JMW_A.
Probab=24.32 E-value=1.8e+02 Score=25.93 Aligned_cols=28 Identities=11% Similarity=-0.135 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHhhhcccchhhhhhhhh
Q 012361 64 IVFTCAAAIGCILLSVGQDEFHGEAMHT 91 (465)
Q Consensus 64 ilft~~ai~gc~vl~~Gq~kfh~~~~~t 91 (465)
.+|+++-++..++.++|-.+-.+++++.
T Consensus 16 ~~~~~ll~~~~~~~~~~l~~~~~~l~~~ 43 (171)
T PF02203_consen 16 ALFLLLLLVVGGLGFWGLRSSNESLEEI 43 (171)
T ss_dssp ---------HHCCCCCCHHHHHHHH-HH
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444555566777776666664333
No 85
>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=23.84 E-value=90 Score=26.79 Aligned_cols=28 Identities=18% Similarity=0.444 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHHHHH--HhcCCCccccc
Q 012361 415 LGMISFGVLLCLLLWIL--YANRPQREEVF 442 (465)
Q Consensus 415 l~~lS~~~~l~~i~Wi~--~~r~~~~~~~~ 442 (465)
++++...+++.+++|.+ .+|||-||--|
T Consensus 37 ~lvI~~iFil~VilwfvCC~kRkrsRrPIY 66 (94)
T PF05393_consen 37 FLVICGIFILLVILWFVCCKKRKRSRRPIY 66 (94)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhccCCcc
Confidence 44455555667778887 45554444333
No 86
>PLN03223 Polycystin cation channel protein; Provisional
Probab=23.21 E-value=4.4e+02 Score=33.05 Aligned_cols=31 Identities=13% Similarity=0.230 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHhhhhhhhHhhHhhhcCC
Q 012361 208 AITFILCGVFVILNNAISDTCMAMDEWVDHP 238 (465)
Q Consensus 208 ~~twil~G~~l~l~~~~~DtC~Am~e~~~~p 238 (465)
.+++++..+|+++|.+++=.+.++.|=-++.
T Consensus 1399 FfSFILLV~FILLNMFIAII~DSFsEVK~d~ 1429 (1634)
T PLN03223 1399 FYSYNIFVFMILFNFLLAIICDAFGEVKANA 1429 (1634)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 5677778888899999999999998875543
No 87
>COG2443 Sss1 Preprotein translocase subunit Sss1 [Intracellular trafficking and secretion]
Probab=23.16 E-value=3.4e+02 Score=21.98 Aligned_cols=39 Identities=23% Similarity=0.378 Sum_probs=18.7
Q ss_pred HHHhhhhHHHHHHHHHHHH--------HHHHHHHHHHHHHHHHHHHH
Q 012361 149 ADKTSENSAKIRKVFNAVR--------SALITVAALMLLLSIIGLFL 187 (465)
Q Consensus 149 ~~k~~~n~~~I~~~l~~v~--------~~liiva~vml~l~~~glv~ 187 (465)
.+...++.++.++++.--| ...=+.+..++++.++|++.
T Consensus 8 ~e~~~~~lke~~rvl~~arKP~~eEy~~~aKi~~~Gi~liG~IGfiI 54 (65)
T COG2443 8 PEELREFLKEYRRVLKVARKPDWEEYSKIAKITGLGILLIGIIGFII 54 (65)
T ss_pred HHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3344444455555554332 12233444556666666654
No 88
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=23.05 E-value=46 Score=31.19 Aligned_cols=30 Identities=20% Similarity=0.238 Sum_probs=16.9
Q ss_pred hhhhHHHHHHHHHHHHHHHHHHHHHhCCcc
Q 012361 16 TGASAFILAVIWFISFGLVLVAHHCCGWRI 45 (465)
Q Consensus 16 Tg~pgf~iA~~Wfi~fGl~l~~~~cc~~~~ 45 (465)
+++.+++|.++-+|..+|+..+|+|||+.+
T Consensus 78 ~~iivgvi~~Vi~Iv~~Iv~~~Cc~c~~~K 107 (179)
T PF13908_consen 78 TGIIVGVICGVIAIVVLIVCFCCCCCCLYK 107 (179)
T ss_pred eeeeeehhhHHHHHHHhHhhheeccccccc
Confidence 445555555444554567777766665433
No 89
>PF12729 4HB_MCP_1: Four helix bundle sensory module for signal transduction; InterPro: IPR024478 This entry represents a four-helix bundle that operates as a ubiquitous sensory module in prokaryotic signal-transduction, which is known as four-helix bundles methyl-accepting chemotaxis protein (4HB_MCP) domain. The 4HB_MCP is always found between two predicted transmembrane helices indicating that it detects only extracellular signals. In many cases the domain is associated with a cytoplasmic HAMP domain suggesting that most proteins carrying the bundle might share the mechanism of transmembrane signalling which is well-characterised in E coli chemoreceptors [].
Probab=22.92 E-value=5e+02 Score=22.44 Aligned_cols=17 Identities=6% Similarity=-0.013 Sum_probs=10.8
Q ss_pred Hhhhcccchhhhhhhhh
Q 012361 75 ILLSVGQDEFHGEAMHT 91 (465)
Q Consensus 75 ~vl~~Gq~kfh~~~~~t 91 (465)
++.+++-.+.+..+.+.
T Consensus 24 ~~~~~~l~~~~~~~~~i 40 (181)
T PF12729_consen 24 IVGLYSLSQINQNVEEI 40 (181)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 55566777777765544
No 90
>PHA02047 phage lambda Rz1-like protein
Probab=22.83 E-value=3.7e+02 Score=23.51 Aligned_cols=31 Identities=10% Similarity=0.160 Sum_probs=16.3
Q ss_pred HHHHHHHHHHHHhhhhhcccccccCchhhhhHHHHHHH
Q 012361 103 VKTLRNVTEYLSLAKTINVAQVFLPSAVMDDIDKLNRD 140 (465)
Q Consensus 103 v~~lrnvt~~L~~ak~~~v~~~~lP~~~~~~id~l~~~ 140 (465)
..+.+|.+..||.++ +++. -.|++++.++.+
T Consensus 33 h~~a~~la~qLE~a~-~r~~------~~Q~~V~~l~~k 63 (101)
T PHA02047 33 HEEAKRQTARLEALE-VRYA------TLQRHVQAVEAR 63 (101)
T ss_pred HHHHHHHHHHHHHHH-HHHH------HHHHHHHHHHHH
Confidence 344456666677654 2221 345566665555
No 91
>COG2177 FtsX Cell division protein [Cell division and chromosome partitioning]
Probab=22.55 E-value=8.6e+02 Score=25.07 Aligned_cols=27 Identities=19% Similarity=0.261 Sum_probs=14.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 012361 155 NSAKIRKVFNAVRSALITVAALMLLLS 181 (465)
Q Consensus 155 n~~~I~~~l~~v~~~liiva~vml~l~ 181 (465)
..+++.+..+.+|.+-+.++.+|.+.+
T Consensus 155 wv~rL~ai~~~~~~v~~~~~~ll~~~~ 181 (297)
T COG2177 155 WVDRLFAILRLVRTVGIGLSILLALAA 181 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 445555556666665555555554433
No 92
>KOG3202 consensus SNARE protein TLG1/Syntaxin 6 [Intracellular trafficking, secretion, and vesicular transport]
Probab=22.42 E-value=5.5e+02 Score=25.75 Aligned_cols=23 Identities=17% Similarity=0.291 Sum_probs=9.8
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHH
Q 012361 140 DLSTAANTLADKTSENSAKIRKV 162 (465)
Q Consensus 140 ~Lns~A~~i~~k~~~n~~~I~~~ 162 (465)
++....+.+.+|...-.+++-++
T Consensus 184 dl~~e~d~t~srl~~~~~~l~~v 206 (235)
T KOG3202|consen 184 DLDNEMDRTESRLDRVMKRLAKV 206 (235)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444444444444433344443
No 93
>PF10854 DUF2649: Protein of unknown function (DUF2649); InterPro: IPR021217 This entry is represented by Spiroplasma phage 1-C74, Orf10. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Members in this family of proteins are also annotated as Plectrovirus orf 10 transmembrane proteins however currently no function is known.
Probab=22.39 E-value=1.1e+02 Score=24.52 Aligned_cols=29 Identities=17% Similarity=0.317 Sum_probs=23.7
Q ss_pred CCcCCccchhhhhhhhhhhHHHHHHHHHHHH
Q 012361 1 MYLIFSSLCMQSVGFTGASAFILAVIWFISF 31 (465)
Q Consensus 1 ~~~i~~~hYwaSv~fTg~pgf~iA~~Wfi~f 31 (465)
|||+++-.| |+.--|++..++-..||..+
T Consensus 29 ~w~ltqneY--lt~MiGiWiVilFLtWf~lw 57 (67)
T PF10854_consen 29 TWNLTQNEY--LTIMIGIWIVILFLTWFLLW 57 (67)
T ss_pred eeccccchh--HHHHHHHHHHHHHHHHHHHH
Confidence 688999888 57788888888888888753
No 94
>COG5130 YIP3 Prenylated rab acceptor 1 and related proteins [Intracellular trafficking and secretion / Signal transduction mechanisms]
Probab=22.23 E-value=6.6e+02 Score=23.59 Aligned_cols=17 Identities=29% Similarity=0.675 Sum_probs=9.0
Q ss_pred HHHHHHHHHHH-Hhhchh
Q 012361 177 MLLLSIIGLFL-SILRHK 193 (465)
Q Consensus 177 ml~l~~~glv~-~~~~~~ 193 (465)
.+++.++|++. |+.|.|
T Consensus 81 llLlivIgivvaGvygi~ 98 (169)
T COG5130 81 LLLLIVIGIVVAGVYGIR 98 (169)
T ss_pred HHHHHHHhhhhheeeehh
Confidence 35566667644 455443
No 95
>TIGR00996 Mtu_fam_mce virulence factor Mce family protein. Members of this paralogous family are found as six tandem homologous proteins in the same orientation per cassette, in four separate cassettes in Mycobacterium tuberculosis. The six members of each cassette represent six subfamilies. One subfamily includes the protein mce (mycobacterial cell entry), a virulence protein required for invasion of non-phagocytic cells.
Probab=22.01 E-value=6.2e+02 Score=25.12 Aligned_cols=28 Identities=21% Similarity=0.311 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHhhhhHHHHHHHHHHH
Q 012361 139 RDLSTAANTLADKTSENSAKIRKVFNAV 166 (465)
Q Consensus 139 ~~Lns~A~~i~~k~~~n~~~I~~~l~~v 166 (465)
.++...+.++++-..+|...|.+.++.+
T Consensus 237 ~~l~~~~~~~~~~l~~~~~~l~~~l~~l 264 (291)
T TIGR00996 237 AALSGASAQVRDLLAENRPNLPQALANL 264 (291)
T ss_pred HHHHHHHHHHHHHHHHhhhhHHHHHHHH
Confidence 3333344444444444445555554443
No 96
>COG3162 Predicted membrane protein [Function unknown]
Probab=21.87 E-value=5.5e+02 Score=22.57 Aligned_cols=27 Identities=30% Similarity=0.389 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHh
Q 012361 196 IHIFILSGWLLVAITFILCGVFVILNN 222 (465)
Q Consensus 196 ~~~~~~~gwilv~~twil~G~~l~l~~ 222 (465)
+..-+.+|......+|++.|+|..-.+
T Consensus 60 Vt~Gip~gvg~fv~tfVlt~IYv~rAn 86 (102)
T COG3162 60 VTRGIPFGVGVFVMTFVLTGIYVRRAN 86 (102)
T ss_pred eehhHhHHHHHHHHHHHHHHHHhhHhh
Confidence 344455566667889999999987654
No 97
>COG5505 Predicted integral membrane protein [Function unknown]
Probab=21.82 E-value=7.8e+02 Score=26.10 Aligned_cols=44 Identities=23% Similarity=0.534 Sum_probs=29.9
Q ss_pred HHHHHHHHHHhhchhh----------HHHHHHHH-------HHHHHHHHHHHHHHHHHHHh
Q 012361 179 LLSIIGLFLSILRHKH----------AIHIFILS-------GWLLVAITFILCGVFVILNN 222 (465)
Q Consensus 179 ~l~~~glv~~~~~~~~----------~~~~~~~~-------gwilv~~twil~G~~l~l~~ 222 (465)
+..+.|++.+++.+.+ ++|.++.+ -.|.++-.||++|.+.++..
T Consensus 252 ~vsi~gLi~aLtPf~~lpgs~elgtv~lY~~v~vias~Ad~~~i~taP~~i~~gf~il~~h 312 (384)
T COG5505 252 LVSITGLIIALTPFERLPGSQELGTVLLYLFVVVIASPADLRLIVTAPLIILFGFIILISH 312 (384)
T ss_pred HHHHHHHHHHhCccccCCchhhhhHHHHHHHHHHhccchhHHHHHhhhHHHHHHHHHHHHH
Confidence 4566777777766433 35555542 36788899999999887743
No 98
>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=21.77 E-value=1.9e+02 Score=25.68 Aligned_cols=34 Identities=18% Similarity=0.367 Sum_probs=24.9
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Q 012361 402 PPLEHYLKIVNAGLGMISFGVLLCLLLWILYANR 435 (465)
Q Consensus 402 ~~L~~~~~~v~~gl~~lS~~~~l~~i~Wi~~~r~ 435 (465)
|+.+...|.++.+++++.+|.++.++=..+..++
T Consensus 35 P~~k~pwK~I~la~~Lli~G~~li~~g~l~~~~~ 68 (115)
T PF05915_consen 35 PKVKIPWKSIALAVFLLIFGTVLIIIGLLLFFGH 68 (115)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3478889999999999999998765443444443
No 99
>PRK11085 magnesium/nickel/cobalt transporter CorA; Provisional
Probab=21.72 E-value=9.1e+02 Score=25.03 Aligned_cols=19 Identities=16% Similarity=0.181 Sum_probs=9.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhhc
Q 012361 170 LITVAALMLLLSIIGLFLSILR 191 (465)
Q Consensus 170 liiva~vml~l~~~glv~~~~~ 191 (465)
|-+++++++...+ +.|++|
T Consensus 259 lTv~s~if~pptl---iagiyG 277 (316)
T PRK11085 259 FSVVSVVFLPPTL---VASSYG 277 (316)
T ss_pred HHHHHHHHHHHHH---HHhhcc
Confidence 3445555555544 455555
No 100
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=21.39 E-value=5.1e+02 Score=26.36 Aligned_cols=9 Identities=11% Similarity=0.342 Sum_probs=4.3
Q ss_pred HHHHHHHHH
Q 012361 102 TVKTLRNVT 110 (465)
Q Consensus 102 tv~~lrnvt 110 (465)
..+.+|+.-
T Consensus 54 ~~~~v~~~~ 62 (289)
T PRK13022 54 DLEQVREAL 62 (289)
T ss_pred CHHHHHHHH
Confidence 345555543
No 101
>PRK08541 flagellin; Validated
Probab=21.04 E-value=1.2e+02 Score=30.00 Aligned_cols=36 Identities=22% Similarity=0.221 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHhhhcccchhhhhhhhhhhH
Q 012361 59 CLILLIVFTCAAAIGCILLSVGQDEFHGEAMHTLKY 94 (465)
Q Consensus 59 slillilft~~ai~gc~vl~~Gq~kfh~~~~~t~~~ 94 (465)
.||.+|-|...|++++.||+--...++..+++|.+.
T Consensus 10 TLIVFIAmVLVAAVAA~VLInTsgfLQQKA~~tG~e 45 (211)
T PRK08541 10 TLIVFIAMVLVAAVAAAVLINTSGYLQQKASATGRE 45 (211)
T ss_pred HHHHHHHHHHHHHHHHHHhhcchhhhhHHHHHHHHh
Confidence 578888899999999999987777777777777654
No 102
>PRK02110 disulfide bond formation protein B; Provisional
Probab=20.93 E-value=2e+02 Score=27.03 Aligned_cols=6 Identities=33% Similarity=0.523 Sum_probs=2.8
Q ss_pred cccccc
Q 012361 244 LSNILP 249 (465)
Q Consensus 244 L~~iLP 249 (465)
+++.+|
T Consensus 116 l~~~~~ 121 (169)
T PRK02110 116 PAKWLP 121 (169)
T ss_pred HHHHHH
Confidence 444444
No 103
>KOG1241 consensus Karyopherin (importin) beta 1 [Nuclear structure; Intracellular trafficking, secretion, and vesicular transport]
Probab=20.69 E-value=1.4e+03 Score=26.96 Aligned_cols=148 Identities=14% Similarity=0.174 Sum_probs=69.2
Q ss_pred hhhhhhhhhhhH-HhccchHHHHHHHHHHHHHHhhhhhcccccccCchhhhhHHHHHHHHHHHHHHHHHHhhhhHHHHHH
Q 012361 83 EFHGEAMHTLKY-VVNQSDYTVKTLRNVTEYLSLAKTINVAQVFLPSAVMDDIDKLNRDLSTAANTLADKTSENSAKIRK 161 (465)
Q Consensus 83 kfh~~~~~t~~~-Vv~qad~tv~~lrnvt~~L~~ak~~~v~~~~lP~~~~~~id~l~~~Lns~A~~i~~k~~~n~~~I~~ 161 (465)
.....+.+.+-. |-+-.++....+.+++.++..=....++..-+-.+.+.+.+.++.-|-..-..+-+|.....+.+-+
T Consensus 516 NLR~AAYeALmElIk~st~~vy~~v~~~~l~il~kl~q~i~~~~l~~~dr~q~~eLQs~Lc~~Lq~i~rk~~~~~~~~~d 595 (859)
T KOG1241|consen 516 NLRSAAYEALMELIKNSTDDVYPMVQKLTLVILEKLDQTISSQILSLADRAQLNELQSLLCNTLQSIIRKVGSDIREVSD 595 (859)
T ss_pred hHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHHHHHHHHHhccHhhHHHHHHHHHHHHHHHHHHHHHccccchhHHH
Confidence 344455555444 4556666667777766654431111111111333556677777766666666666676664444433
Q ss_pred HHHHHHHHHHHHHH-----HH--HHHHHHHHHHHhhchhhHHHHHHHHHHHHHHH-HHHHHHHHHHHHhhhhhhhHhhHh
Q 012361 162 VFNAVRSALITVAA-----LM--LLLSIIGLFLSILRHKHAIHIFILSGWLLVAI-TFILCGVFVILNNAISDTCMAMDE 233 (465)
Q Consensus 162 ~l~~v~~~liiva~-----vm--l~l~~~glv~~~~~~~~~~~~~~~~gwilv~~-twil~G~~l~l~~~~~DtC~Am~e 233 (465)
.+ +.+.+-+.=. ++ -+++ ++-+...+|-+..-|+=.|.=+++-.+ -+-=.=+-...-.++||.|-||++
T Consensus 596 ~i--M~lflri~~s~~s~~v~e~a~la-V~tl~~~Lg~~F~kym~~f~pyL~~gL~n~~e~qVc~~aVglVgdl~raL~~ 672 (859)
T KOG1241|consen 596 QI--MGLFLRIFESKRSAVVHEEAFLA-VSTLAESLGKGFAKYMPAFKPYLLMGLSNFQEYQVCAAAVGLVGDLARALED 672 (859)
T ss_pred HH--HHHHHHHHcCCccccchHHHHHH-HHHHHHHHhHhHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHh
Confidence 22 2222222211 11 1122 233444456555555555543333322 000000011223468999999875
No 104
>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=20.60 E-value=42 Score=30.54 Aligned_cols=42 Identities=21% Similarity=0.403 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHH
Q 012361 169 ALITVAALMLLLSIIGLFLSILRHKHAIHIFILSGWLLVAIT 210 (465)
Q Consensus 169 ~liiva~vml~l~~~glv~~~~~~~~~~~~~~~~gwilv~~t 210 (465)
.++.+.+++++++++|+..+..+.|+++.+..++..+++++.
T Consensus 48 ~~i~~G~~~~~~~~~G~~~~~~~~~~~l~~y~~~~~~~~v~~ 89 (221)
T PF00335_consen 48 ILIFIGIFILIISFLGCIGACRKNRCLLIIYIILLILLFVLE 89 (221)
T ss_dssp ------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHhhcCcccccccccchhhHHHHH
Confidence 334455566777888887766667776666666544443333
No 105
>COG4794 EscS Type III secretory pathway, component EscS [Intracellular trafficking and secretion]
Probab=20.01 E-value=5.7e+02 Score=21.99 Aligned_cols=50 Identities=18% Similarity=0.343 Sum_probs=32.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhc---------hhhHHHHHHHHHHHHHHHHHHHHHH
Q 012361 167 RSALITVAALMLLLSIIGLFLSILR---------HKHAIHIFILSGWLLVAITFILCGV 216 (465)
Q Consensus 167 ~~~liiva~vml~l~~~glv~~~~~---------~~~~~~~~~~~gwilv~~twil~G~ 216 (465)
.+.|+.-+-..++-+++|++.|++- ++..+.++++++-++++.-|.-.-+
T Consensus 15 ~liLilSlPpvivAsvvGllVslvQA~TQiQdQTl~f~iKLl~V~~tl~lt~~Wlg~~l 73 (89)
T COG4794 15 WLILILSLPPVIVASVVGLLVSLVQALTQIQDQTLPFGIKLLAVSATLFLTAGWLGATL 73 (89)
T ss_pred HHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHhHHhHHHH
Confidence 3444544456667777888887643 2345777788888888888875444
Done!