Query 036418
Match_columns 335
No_of_seqs 230 out of 609
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 12:28:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036418.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036418hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3882 Tetraspanin family int 99.9 4.1E-25 9E-30 203.5 16.2 215 64-333 6-230 (237)
2 PF00335 Tetraspannin: Tetrasp 99.8 6.6E-20 1.4E-24 160.0 -1.4 210 66-326 1-216 (221)
3 cd03161 TM4SF2_6_like_LEL Tetr 96.7 0.00048 1E-08 55.2 0.2 43 181-233 29-74 (104)
4 cd03163 TM4SF8_like_LEL Tetras 96.2 0.0011 2.3E-08 53.6 -0.4 47 181-232 30-78 (105)
5 cd03154 TM4SF3_like_LEL Tetras 95.8 0.0014 3.1E-08 52.4 -1.3 39 181-232 34-73 (100)
6 cd03167 oculospanin_like_LEL T 95.7 0.0067 1.5E-07 50.8 2.5 43 181-228 29-76 (120)
7 cd03158 penumbra_like_LEL Tetr 95.5 0.01 2.2E-07 49.3 2.7 44 181-229 29-77 (119)
8 cd03157 TM4SF12_like_LEL Tetra 95.4 0.014 2.9E-07 48.4 3.2 42 181-232 32-75 (103)
9 cd03156 uroplakin_I_like_LEL T 95.2 0.0082 1.8E-07 48.5 1.2 43 181-228 32-78 (114)
10 cd03159 TM4SF9_like_LEL Tetras 95.0 0.014 2.9E-07 48.7 2.0 42 181-227 29-77 (121)
11 cd03164 CD53_like_LEL Tetraspa 95.0 0.0058 1.2E-07 47.7 -0.3 33 181-227 29-61 (86)
12 cd03166 CD63_LEL Tetraspanin, 95.0 0.021 4.5E-07 45.6 2.8 43 181-233 29-75 (99)
13 cd03162 peripherin_like_LEL Te 94.8 0.018 3.9E-07 50.8 2.2 49 181-234 34-106 (143)
14 cd03165 NET-5_like_LEL Tetrasp 94.6 0.02 4.4E-07 45.3 2.0 42 181-232 31-74 (98)
15 cd03155 CD151_like_LEL Tetrasp 94.6 0.024 5.2E-07 46.0 2.5 47 181-232 32-82 (110)
16 cd03160 CD37_CD82_like_LEL Tet 94.4 0.022 4.8E-07 46.8 1.8 43 181-228 33-76 (117)
17 cd03127 tetraspanin_LEL Tetras 93.9 0.034 7.3E-07 42.6 1.7 37 180-227 28-64 (90)
18 COG4993 Gcd Glucose dehydrogen 87.1 1.6 3.5E-05 47.0 6.8 66 71-149 3-68 (773)
19 cd03152 CD9_LEL Tetraspanin, e 85.7 0.63 1.4E-05 36.2 2.4 28 182-225 32-59 (84)
20 PF04156 IncA: IncA protein; 79.7 2.1 4.5E-05 38.3 3.6 17 74-90 7-23 (191)
21 PF06770 Arif-1: Actin-rearran 78.0 12 0.00026 34.9 8.0 53 78-130 5-64 (196)
22 cd07912 Tweety_N N-terminal do 70.0 11 0.00024 38.9 6.3 43 104-147 207-249 (418)
23 PF09323 DUF1980: Domain of un 67.5 14 0.0003 33.3 5.8 41 109-149 34-87 (182)
24 PF09889 DUF2116: Uncharacteri 67.3 16 0.00035 27.7 5.2 34 285-318 22-55 (59)
25 PRK12585 putative monovalent c 67.0 20 0.00043 33.5 6.7 55 72-127 6-60 (197)
26 KOG4433 Tweety transmembrane/c 66.0 9.8 0.00021 40.0 5.0 45 104-149 208-252 (526)
27 PF11297 DUF3098: Protein of u 66.0 8.3 0.00018 30.3 3.5 24 73-96 5-28 (69)
28 PF15345 TMEM51: Transmembrane 65.6 7.7 0.00017 37.0 3.9 21 103-123 57-77 (233)
29 KOG4812 Golgi-associated prote 62.8 28 0.0006 33.7 7.0 21 108-128 227-247 (262)
30 PF06638 Strabismus: Strabismu 59.8 54 0.0012 34.7 9.1 34 106-141 132-166 (505)
31 PF03729 DUF308: Short repeat 59.0 47 0.001 24.1 6.5 47 81-133 2-48 (72)
32 PF04103 CD20: CD20-like famil 57.6 3.4 7.4E-05 34.8 0.0 64 78-145 6-69 (150)
33 PF11139 DUF2910: Protein of u 54.7 39 0.00085 30.9 6.5 101 76-178 70-193 (214)
34 PF07086 DUF1352: Protein of u 53.0 1.5E+02 0.0032 27.5 9.9 77 64-146 34-110 (186)
35 PF11023 DUF2614: Protein of u 52.7 28 0.00061 29.9 4.7 48 105-157 13-60 (114)
36 PF05915 DUF872: Eukaryotic pr 52.0 28 0.0006 29.7 4.6 58 57-122 34-91 (115)
37 PRK02935 hypothetical protein; 51.4 39 0.00085 28.8 5.3 48 105-157 14-61 (110)
38 PF04906 Tweety: Tweety; Inte 49.5 8.9 0.00019 39.1 1.5 41 104-145 184-224 (406)
39 cd03151 CD81_like_LEL Tetraspa 49.0 5.1 0.00011 31.4 -0.3 30 183-225 33-62 (84)
40 PF04156 IncA: IncA protein; 47.2 56 0.0012 29.1 6.1 16 109-124 10-25 (191)
41 PF11127 DUF2892: Protein of u 46.3 42 0.00092 25.0 4.4 21 109-129 35-55 (66)
42 PF12273 RCR: Chitin synthesis 40.1 33 0.00072 29.2 3.3 7 169-175 35-41 (130)
43 PF11712 Vma12: Endoplasmic re 38.0 1.1E+02 0.0023 26.6 6.2 22 63-84 71-93 (142)
44 PF10724 DUF2516: Protein of u 37.8 97 0.0021 25.9 5.7 27 69-95 3-29 (100)
45 PF11947 DUF3464: Protein of u 37.8 2.6E+02 0.0055 25.2 8.7 54 65-124 60-113 (153)
46 PF03142 Chitin_synth_2: Chiti 37.5 90 0.002 33.3 6.7 19 74-92 401-419 (527)
47 COG2149 Predicted membrane pro 36.6 1.8E+02 0.0038 25.3 7.1 16 75-90 25-41 (120)
48 PRK12660 putative monovalent c 36.3 1E+02 0.0022 26.1 5.7 49 75-126 2-50 (114)
49 PF05374 Mu-conotoxin: Mu-Cono 35.7 16 0.00034 22.6 0.5 10 223-232 2-11 (22)
50 PRK07946 putative monovalent c 35.2 49 0.0011 30.1 3.7 48 74-124 3-50 (163)
51 PF15125 TMEM238: TMEM238 prot 33.9 1.1E+02 0.0023 23.9 4.8 25 100-124 3-27 (65)
52 COG3247 HdeD Uncharacterized c 33.8 1.7E+02 0.0036 27.1 7.1 51 77-133 21-71 (185)
53 PF05478 Prominin: Prominin; 33.6 54 0.0012 36.4 4.5 51 109-159 422-488 (806)
54 PF12191 stn_TNFRSF12A: Tumour 33.5 2.9 6.3E-05 36.4 -4.1 55 271-326 40-102 (129)
55 PF04854 DUF624: Protein of un 32.5 39 0.00085 25.7 2.4 21 72-92 2-25 (77)
56 PRK15035 cytochrome bd-II oxid 32.3 1.3E+02 0.0028 32.1 6.8 49 109-157 392-444 (514)
57 PF10953 DUF2754: Protein of u 32.0 16 0.00036 28.0 0.2 37 293-329 5-41 (70)
58 PF09972 DUF2207: Predicted me 31.1 73 0.0016 31.9 4.7 15 111-125 401-415 (511)
59 PRK15097 cytochrome d terminal 31.0 1.2E+02 0.0027 32.3 6.4 49 109-157 392-444 (522)
60 PF02656 DUF202: Domain of unk 27.8 1.7E+02 0.0036 22.1 5.2 14 112-125 47-60 (73)
61 PF15202 Adipogenin: Adipogeni 27.7 1.2E+02 0.0026 24.1 4.3 26 307-332 16-41 (81)
62 PF11177 DUF2964: Protein of u 27.6 1.7E+02 0.0037 22.6 5.0 24 66-89 5-28 (62)
63 PF13706 PepSY_TM_3: PepSY-ass 27.6 71 0.0015 21.6 2.7 21 110-130 12-32 (37)
64 PF11384 DUF3188: Protein of u 26.9 67 0.0015 23.5 2.6 21 102-124 22-42 (49)
65 PRK10209 acid-resistance membr 26.8 3E+02 0.0065 24.9 7.5 50 77-132 23-72 (190)
66 KOG3814 Signaling protein van 26.6 3.3E+02 0.0071 28.5 8.2 22 98-123 152-173 (531)
67 PF01654 Bac_Ubq_Cox: Bacteria 26.6 1.2E+02 0.0027 31.4 5.5 49 109-157 326-377 (436)
68 PRK12671 putative monovalent c 26.4 3.4E+02 0.0073 23.5 7.3 54 69-123 9-62 (120)
69 PF09125 COX2-transmemb: Cytoc 25.9 1.9E+02 0.004 20.3 4.4 26 291-316 8-33 (38)
70 PRK10263 DNA translocase FtsK; 25.8 3.4E+02 0.0073 32.4 9.1 10 114-123 118-127 (1355)
71 PRK11901 hypothetical protein; 25.7 59 0.0013 32.6 2.8 23 108-130 37-59 (327)
72 PF13829 DUF4191: Domain of un 25.4 2.3E+02 0.0049 27.1 6.5 40 113-156 32-71 (224)
73 COG4194 Predicted membrane pro 25.0 4.6E+02 0.01 26.7 8.8 49 108-156 221-270 (350)
74 PLN02518 pheophorbide a oxygen 24.9 1.7E+02 0.0038 31.2 6.3 13 283-296 466-478 (539)
75 PF06570 DUF1129: Protein of u 24.0 5.4E+02 0.012 23.4 8.7 24 71-95 81-104 (206)
76 PRK11513 cytochrome b561; Prov 24.0 1.8E+02 0.0038 26.1 5.4 33 297-335 134-166 (176)
77 PF13903 Claudin_2: PMP-22/EMP 23.9 3.1E+02 0.0066 23.0 6.7 28 109-136 73-101 (172)
78 PF13630 SdpI: SdpI/YhfL prote 23.6 3E+02 0.0064 20.5 5.9 15 110-124 34-48 (76)
79 KOG4753 Predicted membrane pro 23.5 69 0.0015 27.8 2.5 11 111-121 88-98 (124)
80 COG4298 Uncharacterized protei 23.3 87 0.0019 25.8 2.9 23 72-94 17-39 (95)
81 PF07331 TctB: Tripartite tric 22.7 1.6E+02 0.0035 24.5 4.7 30 296-325 69-98 (141)
82 PHA03048 IMV membrane protein; 22.2 1.4E+02 0.0031 24.7 3.9 30 297-329 41-70 (93)
83 PF13908 Shisa: Wnt and FGF in 22.2 39 0.00084 30.2 0.8 13 112-124 81-93 (179)
84 PHA01514 O-antigen conversion 22.0 3.4E+02 0.0073 28.8 7.6 35 105-140 318-352 (485)
85 PF10003 DUF2244: Integral mem 21.8 1.3E+02 0.0028 26.0 4.0 36 58-93 3-38 (140)
86 PF06341 DUF1056: Protein of u 21.7 3.3E+02 0.0071 21.2 5.6 48 66-124 6-53 (63)
87 PF12805 FUSC-like: FUSC-like 21.7 2.8E+02 0.006 26.5 6.5 15 113-127 30-44 (284)
88 PF08006 DUF1700: Protein of u 21.3 2.4E+02 0.0053 25.0 5.7 15 32-46 49-63 (181)
89 COG1138 CcmF Cytochrome c biog 21.1 1.6E+02 0.0035 32.3 5.2 43 115-157 15-62 (648)
90 PRK12586 putative monovalent c 21.1 6E+02 0.013 22.7 9.1 25 71-95 8-32 (145)
91 PF09925 DUF2157: Predicted me 20.7 5.4E+02 0.012 22.0 8.2 22 74-95 32-53 (145)
92 PF06422 PDR_CDR: CDR ABC tran 20.7 1.2E+02 0.0026 25.0 3.3 22 295-316 45-66 (103)
93 PF08172 CASP_C: CASP C termin 20.5 1.1E+02 0.0025 29.3 3.6 21 308-328 221-241 (248)
94 PF05640 NKAIN: Na,K-Atpase In 20.2 3.6E+02 0.0078 25.4 6.6 34 114-147 40-73 (200)
No 1
>KOG3882 consensus Tetraspanin family integral membrane protein [General function prediction only]
Probab=99.93 E-value=4.1e-25 Score=203.52 Aligned_cols=215 Identities=13% Similarity=0.173 Sum_probs=151.7
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhheeeccCcccc----ccccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHH
Q 036418 64 ALRAKSLSGILAMISFIVSLPILASVIWLLYMRDYDCEN----LLRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGF 139 (335)
Q Consensus 64 ~~~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~----~l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y 139 (335)
.+|+|++++++|+++|++|+.++++|+|+..++...-.- ++..++++|++|.+++++|++||+||+|||+|+|.+|
T Consensus 6 ~~~~K~~lf~~N~~~~l~G~~ll~~giw~~~~~~~~~~~~~~~~~~~~~ili~~G~v~~~v~flGc~Ga~~es~~lL~~y 85 (237)
T KOG3882|consen 6 SSCLKYLLFLLNLLFWLLGLLLLAVGIWLLADKGFLSSLLESDFLVPAYILIAVGGVVFLVGFLGCCGALRESRCLLLSY 85 (237)
T ss_pred cchHHHHHHHHHHHHHHHHHHHHHhhhheeEeccchhhccccchhcchhhhhhhhHHHHHHHHhhhhhhHhhhHHHHHHH
Confidence 579999999999999999999999999999985421111 3567889999999999999999999999999999999
Q ss_pred HHHHHHHHHHHH--HHHHhhcccccccccc-cCchhHHhhcCCCC---CchhhhhHhhhcCcccccccccCcccccchhh
Q 036418 140 LLAVVPLLVMLT--VGLALLGAYDMESRKI-LASPRWFKLKVDNP---NNWNNIKSCIYDTKICDDLFLKSLTVKSYDFT 213 (335)
Q Consensus 140 ~ilm~lLil~li--~~faf~gg~~v~~r~L-~DYs~WLq~rv~d~---~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~ 213 (335)
++++++++++.+ .+++|+..+++.+.-. +.+..-.+.+..++ +.||.+|.-+ .|||.++. + ||+
T Consensus 86 ~~~l~l~~i~e~~~~i~~~~~~~~l~~~~~~~~~~~~~~~y~~~~~~~~~~d~~Q~~~----~CCG~~~~-~-----~~~ 155 (237)
T KOG3882|consen 86 FILLLLLFIAELAAGILAFVFRDSLRDELEEQLLKSIWNNYSSDPDLGEAWDKLQREL----KCCGVNGY-S-----DYF 155 (237)
T ss_pred HHHHHHHHHHHHHHHHHhheeHHHHHHHHHHHHHHHHHHHhCCCccHHHHHHHHHHhc----cCCcCCCc-h-----HHh
Confidence 999988888843 3333322233333211 11122222222222 4688777655 99999994 3 666
Q ss_pred hccCCCCCCcccCCCCCCCCCccCceeeecCCCCCcCCCCCCCCCCcccccCCCcccccccCCCCcccccCcchhhHHHH
Q 036418 214 MKKLSPIESGCCTPPAVCGMKFVNATSWIKGDNGAVNNTVPLDSDCDDENKLLDSDCDTWTNDRNVLCYDCQACKDGFVR 293 (335)
Q Consensus 214 ~~~lspIqSGCCKPPt~Cg~~y~N~T~W~~~~~~~~~~~~~~~~~~~~~~~~~d~DC~~WsNd~~~LCy~C~SCKaGvL~ 293 (335)
......+|++||++..... .+.. .+++.. +.|.++
T Consensus 156 ~~~~~~vP~SCC~~~~~~~--------------~~~~---------------~~~~~~----------------~~GC~~ 190 (237)
T KOG3882|consen 156 NCSSNNVPPSCCKRTRRQK--------------FPQD---------------VPDNIY----------------TEGCLE 190 (237)
T ss_pred cCCCCCCCcccCCCccccc--------------cccc---------------chhhhh----------------ccccHH
Confidence 5432229999998710000 0000 011111 457778
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhh
Q 036418 294 TLESKWRKLGLFLVLMSLFLFVSHLFLFLATMWELVVVKE 333 (335)
Q Consensus 294 ~lr~~W~~~~i~ni~~~i~Li~~~~~~~~~~~~~~~~~~~ 333 (335)
.+++.++....+...+.+.+.++|+++++++|.....++.
T Consensus 191 ~~~~~~~~~~~~i~~~~~~i~~~~~~~~~~a~~l~~~i~~ 230 (237)
T KOG3882|consen 191 KLSSWLESNLLIIGGVGLGIAVLELLGMILACCLANAIRN 230 (237)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 8888888888888888889999999999999999887764
No 2
>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=99.75 E-value=6.6e-20 Score=160.03 Aligned_cols=210 Identities=14% Similarity=0.126 Sum_probs=44.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhe-eeccCc---cccccccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHH
Q 036418 66 RAKSLSGILAMISFIVSLPILASVIWLL-YMRDYD---CENLLRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLL 141 (335)
Q Consensus 66 ~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~-~~~~~~---c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~i 141 (335)
|+|+++.++|++++++|++++++|+|+. ...... .......+.+++.+|+++++++++|++|+++++++++..|.+
T Consensus 1 c~k~~l~~~n~l~~l~g~~li~~g~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~~~~~~~~~G~~~~~~~~~~~l~~y~~ 80 (221)
T PF00335_consen 1 CLKYILFFLNVLFLLLGLALIGVGIWLLVNNQYLSEFSSSFISYVIIILIFIGIFILIISFLGCIGACRKNRCLLIIYII 80 (221)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ChhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccccchhHHHHHHHHHHHHHHHHHHHHHHHHhhcCccccccccc
Confidence 6899999999999999999999999993 222111 112233455667789999999999999999999999999998
Q ss_pred HHHHHHHHHH--HHHHhhcccccccccccCchhHHhhcCCCCCchhhhhHhhhcCcccccccccCcccccchhhhccCCC
Q 036418 142 AVVPLLVMLT--VGLALLGAYDMESRKILASPRWFKLKVDNPNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSP 219 (335)
Q Consensus 142 lm~lLil~li--~~faf~gg~~v~~r~L~DYs~WLq~rv~d~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lsp 219 (335)
++++++++.+ .++.+.-.+++.+.-.++++.+.+++....+.+.+..+.+|++..|||.++. . ||......+
T Consensus 81 ~~~~~~v~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iq~~~~CCG~~~~-~-----d~~~~~~~~ 154 (221)
T PF00335_consen 81 LLILLFVLELVVGIVAFSYRDQLNSSLKDGLSLRCMKSYNSNESFSEAWDNIQEKFECCGVNSP-D-----DWFTSKWSS 154 (221)
T ss_dssp -------------------HHHHHHHHHHHHHHHHHHSSTT-CHHHHHHHHHHHHHT--SSTTC-H-----HHHHHHHHT
T ss_pred chhhHHHHHHHHHHhhhhccccccccccccccchhhhccccccchhhheecccccccccCCCCC-c-----ccccccccc
Confidence 8777766643 2223321122222111111233344444556666666677777799999883 5 544322110
Q ss_pred CCCcccCCCCCCCCCccCceeeecCCCCCcCCCCCCCCCCcccccCCCcccccccCCCCcccccCcchhhHHHHHHHHHH
Q 036418 220 IESGCCTPPAVCGMKFVNATSWIKGDNGAVNNTVPLDSDCDDENKLLDSDCDTWTNDRNVLCYDCQACKDGFVRTLESKW 299 (335)
Q Consensus 220 IqSGCCKPPt~Cg~~y~N~T~W~~~~~~~~~~~~~~~~~~~~~~~~~d~DC~~WsNd~~~LCy~C~SCKaGvL~~lr~~W 299 (335)
++++.. .+++..++.+....++.++.|+..+.+.+++.+
T Consensus 155 -~~~~~~----------------------------------------~~~~~~~~~~~~~~~~~~~gC~~~l~~~~~~~~ 193 (221)
T PF00335_consen 155 -CSSPDS----------------------------------------CPDCQCPDDCSSENSIYTRGCYDKLREYLRSYL 193 (221)
T ss_dssp --------------------------------------------------TCS-TTCCCCHCCTST-HHHHHHHHHCT--
T ss_pred -cccccc----------------------------------------cccccccccccccccccCCChHHHHHHHHHHHH
Confidence 111100 024444555567778889999999999999888
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 300 RKLGLFLVLMSLFLFVSHLFLFLATMW 326 (335)
Q Consensus 300 ~~~~i~ni~~~i~Li~~~~~~~~~~~~ 326 (335)
+.++++.++++ ++++++++.+++
T Consensus 194 ~~~~~~~~~~~----~l~~~~~~~a~~ 216 (221)
T PF00335_consen 194 KYIGIVSLAIL----VLQLIGIILACC 216 (221)
T ss_dssp ---------------------------
T ss_pred HHHHHHHHHHH----HHHHHHHHHHHH
Confidence 77766665554 444555555544
No 3
>cd03161 TM4SF2_6_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF2_6_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contaions transmembrane 4 superfamily 2 (TM4SF2) or Tspan-7, transmembrane 4 superfamily 6 (TM4SF6) or Tspan-6, and related proteins. TM4SF2 has been identified as involved in some forms of X-linked mental retardation.
Probab=96.67 E-value=0.00048 Score=55.23 Aligned_cols=43 Identities=14% Similarity=0.295 Sum_probs=30.2
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc---CCCCCCcccCCCCCCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK---LSPIESGCCTPPAVCGM 233 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~---lspIqSGCCKPPt~Cg~ 233 (335)
...|+.||.-| .|||+++ +. ||.... -.++|.+||+....|+.
T Consensus 29 ~~~~d~iQ~~l----~CCG~~~-~~-----Dw~~~~~~~~~~vP~SCC~~~~~C~~ 74 (104)
T cd03161 29 SDAVDTVQRTL----HCCGVEN-YT-----DWLNSPYFLEKGIPLSCCKNRSDCSP 74 (104)
T ss_pred HHHHHHHHhcC----cCcCCCC-hh-----hhhccccccCCCcCcccccCCCCCCc
Confidence 44688877666 9999988 46 553211 23699999987667864
No 4
>cd03163 TM4SF8_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF8_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contaions transmembrane 4 superfamily 8 (TM4SF8) or Tspan-3 and related proteins. Tspan-3 has been reported to form a complex with integrin beta1 and OSP/claudin-11, which may be involved in oligodendrocyte proliferation and migration.
Probab=96.19 E-value=0.0011 Score=53.63 Aligned_cols=47 Identities=9% Similarity=0.258 Sum_probs=30.0
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc-CCCCCCcccCCC-CCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK-LSPIESGCCTPP-AVCG 232 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~-lspIqSGCCKPP-t~Cg 232 (335)
.+.|+.+|.-| .|||+++ +++|....|+... -..||.+||+.+ ..|+
T Consensus 30 ~~~~d~iQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~vP~SCC~~~~~~C~ 78 (105)
T cd03163 30 SRAVDYLQRQL----QCCGIHN-YTDWENTPWFKESKNNSVPLSCCKETFTSCT 78 (105)
T ss_pred HHHHHHHHHhC----cccCCCC-HHHHhhchhhhcCCCCccCcCccCCCCCCcc
Confidence 56788888776 9999988 4644322222211 246999999654 3574
No 5
>cd03154 TM4SF3_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF3_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contaions transmembrane 4 superfamily 3 (TM4SF3) or D6.1a and related proteins. D6.1a associates with alpha6beta4 integrin and supports cell motility, it has been ascribed a role in tumor progression and metastasis.
Probab=95.81 E-value=0.0014 Score=52.40 Aligned_cols=39 Identities=15% Similarity=0.122 Sum_probs=26.4
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhccCCCCCCccc-CCCCCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSPIESGCC-TPPAVCG 232 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lspIqSGCC-KPPt~Cg 232 (335)
.+.|+.+|.-| .|||+++. . ||+. ..||.+|| .++..|+
T Consensus 34 ~~~~d~lQ~~l----~CCG~~~~-~-----d~~~---~~vP~SCcc~~~~~c~ 73 (100)
T cd03154 34 KKSLEKFQKEL----KCCGLVNG-A-----DDWG---NDIPASCNCTTTQSDC 73 (100)
T ss_pred HHHHHHHHHcC----CCCCCCCc-h-----hhcc---CCCCCCCcCCCCCCCc
Confidence 35688888766 99998773 4 5542 35999995 4445564
No 6
>cd03167 oculospanin_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), oculospanin_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contains sequences similar to oculospanin, which is found to be expressed in retinal pigment epithelium, iris, ciliary body, and retinal ganglion cells.
Probab=95.74 E-value=0.0067 Score=50.76 Aligned_cols=43 Identities=9% Similarity=0.145 Sum_probs=27.4
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc-----CCCCCCcccCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK-----LSPIESGCCTPP 228 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~-----lspIqSGCCKPP 228 (335)
...|+.||.-| .|||+++ |.+|....|+... -.+||.+||+.+
T Consensus 29 ~~~~d~iQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~~~~~vP~SCC~~~ 76 (120)
T cd03167 29 RFLIDQVQLGL----QCCGASS-YQDWQQNLYFNCSSPGVQACSLPASCCIDP 76 (120)
T ss_pred HHHHHHHHHhc----cCCCCCC-hHHhcccccccCCCCCCCCCCCCcCccCCC
Confidence 35799888777 9999999 4643322222110 125999999754
No 7
>cd03158 penumbra_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), penumbra_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". Human Penumbra exhibits growth-suppressive activity in vitro and has been associated with myeloid malignancies.
Probab=95.49 E-value=0.01 Score=49.25 Aligned_cols=44 Identities=9% Similarity=0.011 Sum_probs=28.5
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc-----CCCCCCcccCCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK-----LSPIESGCCTPPA 229 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~-----lspIqSGCCKPPt 229 (335)
...|+.+|.-| .|||+++ |.+|....|+... -.+||.+||++..
T Consensus 29 ~~~~d~lQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~~~~~vP~SCC~~~~ 77 (119)
T cd03158 29 QNIIDFVQKEF----KCCGGDD-YRDWSKNMYFNCSSPNPEACGVPYSCCIRAK 77 (119)
T ss_pred HHHHHHHHHHc----cCCCCCC-hhhcccccccccCCCCCcCCCcCcCcccCCC
Confidence 55688888777 9999998 5754332232211 1259999997653
No 8
>cd03157 TM4SF12_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF12_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This sub-family contains proteins similar to human transmembrane 4 superfamily member 12 (TM4SF12).
Probab=95.43 E-value=0.014 Score=48.40 Aligned_cols=42 Identities=17% Similarity=0.457 Sum_probs=29.6
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhc-cCCCCCCcccCCCC-CCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMK-KLSPIESGCCTPPA-VCG 232 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~-~lspIqSGCCKPPt-~Cg 232 (335)
...|+.||.-| .|||+++ +. ||... ....||.+||+.++ .|+
T Consensus 32 ~~~~D~iQ~~l----~CCG~~~-~~-----DW~~~~~~~~vP~SCC~~~~~~C~ 75 (103)
T cd03157 32 THAWNSFQTEF----KCCGVIY-FT-----DWLEMTEMEWPPDSCCSNQYPGCA 75 (103)
T ss_pred HHHHHHHHHhc----cCccCCC-hh-----HHhccCCCCCCCccccCCCCCCcC
Confidence 44699998877 9999998 46 66432 11348999997654 575
No 9
>cd03156 uroplakin_I_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), uroplakin_I_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". Uroplakin Ia and Ib are components of the 16nm protein particles, which are packed hexagonally to form 2D crystals of asymmetric unit membranes, and cover the apical surface of mammalian urothelium, contributing to the urinay bladder's permeability barrier function. Uroplakins Ia and Ib are ma
Probab=95.22 E-value=0.0082 Score=48.54 Aligned_cols=43 Identities=16% Similarity=0.318 Sum_probs=28.3
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhh----ccCCCCCCcccCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTM----KKLSPIESGCCTPP 228 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~----~~lspIqSGCCKPP 228 (335)
+..||.||.-| .|||+++ |.+|....|+. ..-.+||.+||++.
T Consensus 32 ~~~~d~iQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~~~~vP~SCC~~~ 78 (114)
T cd03156 32 TSTWNRVMIEL----KCCGVNG-PTDFVDSTSFFRQKNEPNSPYPESCCKRN 78 (114)
T ss_pred HHHHHHHHhcc----cCcCCCC-cHHHHhhhHHhccCCCCCCcCCHHHcCcc
Confidence 55689888766 9999998 46332222211 12357999999754
No 10
>cd03159 TM4SF9_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), TM4SF9_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This subfamily contaions transmembrane 4 superfamily 9 (TM4SF9) or Tetraspanin-5 and related proteins. TM4SF9 is strongly expressed witin the central nervous system, and expression levels appear to correlate with differentiation status of particular neurons, hinting at a role in neuronal maturation.
Probab=95.02 E-value=0.014 Score=48.68 Aligned_cols=42 Identities=10% Similarity=0.018 Sum_probs=27.1
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc-------CCCCCCcccCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK-------LSPIESGCCTP 227 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~-------lspIqSGCCKP 227 (335)
.+.||.||.-| .|||+++ +++|....|+... -.+||.+||++
T Consensus 29 ~~~~D~iQ~~l----~CCG~~~-~~DW~~~~~~~~~~~~~~~~~~~vP~SCC~~ 77 (121)
T cd03159 29 QNLIDFLQEYW----QCCGARG-PDDWNLNIYFNCTDSNPSRERCGVPFSCCVK 77 (121)
T ss_pred HHHHHHHHHhc----cCCCCCC-hHHhcccccccccCCCCCCCCCCCCcccccC
Confidence 46799888777 9999999 4744322222110 02499999973
No 11
>cd03164 CD53_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD53_Like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD53 is a tetraspanin of the lymphoid-myeloid lineage and has been implicated in apoptosis protection. It associates with integrin alpha4beta1. Some of the cellular responses modulated by CD53 may be mediated by JNK activation and/or via the AKT pathway.
Probab=94.98 E-value=0.0058 Score=47.73 Aligned_cols=33 Identities=27% Similarity=0.645 Sum_probs=25.4
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhccCCCCCCcccCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSPIESGCCTP 227 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lspIqSGCCKP 227 (335)
...|+.+|.-| .|||+++ +. ||. +.+|.+||+.
T Consensus 29 ~~~~d~iQ~~l----~CCG~~~-~~-----Dw~----~~vP~SCC~~ 61 (86)
T cd03164 29 SEAWDMIQSNL----QCCGING-TT-----DWG----SGVPSSCCSS 61 (86)
T ss_pred HHHHHHHHHHh----cCCCCCC-hh-----hhC----CCCChhhcCC
Confidence 46688888777 9999887 35 774 3589999963
No 12
>cd03166 CD63_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD63 family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD63 is present in platelets, neutrophils, and endothelial cells, amongst others. In platelets it associates with the integrin alphaIIBbeta3 and may modulate alphaIIbbeta3-dependent cytoskeletal reorganization.
Probab=94.95 E-value=0.021 Score=45.55 Aligned_cols=43 Identities=14% Similarity=0.331 Sum_probs=30.2
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhc---cCCCCCCcccCCC-CCCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMK---KLSPIESGCCTPP-AVCGM 233 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~---~lspIqSGCCKPP-t~Cg~ 233 (335)
.+.|+.+|.-| .|||+++ |. ||... .-.+||.+||+.+ ..|+.
T Consensus 29 ~~~~d~iQ~~l----~CCG~~~-~~-----Dw~~~~~~~~~~vP~SCC~~~~~~C~~ 75 (99)
T cd03166 29 RKILDRMQKDL----KCCGANN-YT-----DWENIPSLDTDSVPDSCCINVTKGCGI 75 (99)
T ss_pred HHHHHHHHHHh----cccCCCC-hh-----hhhcccCCCCCCCCcCccCcCCCCccc
Confidence 55799998887 9999998 46 55421 1246999999643 45763
No 13
>cd03162 peripherin_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), peripherin_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". Peripherin, or RDS (retinal degradation slow) is a glycoprotein expressed in vertebrate photoreceptors, located at the rim of the disc membranes of the photoreceptor outer segments. RDS is thought to play a major role in folding and stacking of the discs. Mutations in RDS have been linked to her
Probab=94.79 E-value=0.018 Score=50.75 Aligned_cols=49 Identities=14% Similarity=0.253 Sum_probs=34.2
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc---------------------C-CCCCCcccCC--CCCCCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK---------------------L-SPIESGCCTP--PAVCGMK 234 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~---------------------l-spIqSGCCKP--Pt~Cg~~ 234 (335)
.+.||.+|.-+ .|||.++ +.+|....|.... + ..||-|||+| |..|+..
T Consensus 34 ~~~~D~lQ~~f----kCCG~~~-y~DW~~~~w~~n~y~~~~~~~~~~~~~~~~~~~~~~~~vP~SCc~~~~~~~C~~~ 106 (143)
T cd03162 34 KKTIDMLQIEF----QCCGNNG-YRDWFEIQWISNRYLDFSSKEVKDRIKSNVDGRYLTDGVPFSCCNPSSPRPCIQH 106 (143)
T ss_pred HHHHHHHHHhc----cCCCCCC-hhhhhhhhhhcccccCCCccchhhhhhcccccccccCCcCCcccCCCCCCchhhh
Confidence 34588888777 9999998 5766544444332 2 5799999965 5679864
No 14
>cd03165 NET-5_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), NET-5_like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". This sub-family contains proteins similar to human tetraspan NET-5.
Probab=94.64 E-value=0.02 Score=45.33 Aligned_cols=42 Identities=19% Similarity=0.446 Sum_probs=29.0
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhc-cCCCCCCcccCCC-CCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMK-KLSPIESGCCTPP-AVCG 232 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~-~lspIqSGCCKPP-t~Cg 232 (335)
...|+.+|.-| .|||+++ +. ||... ....||.+||+.. ..|+
T Consensus 31 ~~~~d~~Q~~l----~CCG~~~-~~-----Dw~~~~~~~~vP~SCC~~~~~~C~ 74 (98)
T cd03165 31 TNAWDITQTEF----RCCGVTN-YT-----DWYEVLGENRVPDSCCQEDSQDCG 74 (98)
T ss_pred HHHHHHHHHhC----cCcCCCC-hh-----HHHHhcCCCCCCHhhcCCCccccc
Confidence 44688888776 9999988 46 66432 1246999999643 3574
No 15
>cd03155 CD151_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD151_Like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD151strongly associates with integrins, especially alpha3beta1, alpha6beta1, alpha7beta1, and alpha6beta4; it may play roles in cell-cell adhesion, cell migration, platelet aggregation, and angiogenesis. For example, CD151 is is involved in regulation of migration of neutrophils, endothelial cells, and
Probab=94.63 E-value=0.024 Score=45.95 Aligned_cols=47 Identities=11% Similarity=0.226 Sum_probs=28.9
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhc---cCCCCCCcccCCCC-CCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMK---KLSPIESGCCTPPA-VCG 232 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~---~lspIqSGCCKPPt-~Cg 232 (335)
...|+.+|.-| .|||+++ +.+|....|+.. .-..||.+||+... .|+
T Consensus 32 ~~~~d~iQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~~~vP~SCC~~~~~~c~ 82 (110)
T cd03155 32 TLTVDELQQEF----KCCGSNN-YTDWQDSEWINSNEANGRLVPDSCCKTVVDRCG 82 (110)
T ss_pred HHHHHHHHHhC----cCcCCCC-hhhhhhccccccCCCCCCCCCccccCCCCCCcc
Confidence 45688888766 9999998 463332222210 11369999997543 464
No 16
>cd03160 CD37_CD82_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD37_CD82_Like family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD37 is a leukocyte-specific protein, and its restricted expression pattern suggests a role in the immune system. A regulatory role in T-cell proliferation has been suggested. CD82 is a metastasis suppressor implicated in biological processes ranging from fusion, adhesion, and migration to apoptos
Probab=94.41 E-value=0.022 Score=46.84 Aligned_cols=43 Identities=9% Similarity=0.251 Sum_probs=25.9
Q ss_pred CCchhhhhHhhhcCcccccccccCcccccchhhhcc-CCCCCCcccCCC
Q 036418 181 PNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKK-LSPIESGCCTPP 228 (335)
Q Consensus 181 ~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~-lspIqSGCCKPP 228 (335)
.+.|+.+|.-| .|||+++ |.+|....|+... -..||.+||++.
T Consensus 33 ~~~~d~iQ~~l----~CCG~~~-~~Dw~~~~~~~~~~~~~vP~SCC~~~ 76 (117)
T cd03160 33 EEAWDYVQFQL----QCCGWTG-PQDWTDNSLIKNSSEPLYPCSCCNSS 76 (117)
T ss_pred HHHHHHHHhhC----cccCCCC-chhHHhchhccCCCCCCCCHhhhcCC
Confidence 44688887666 9999988 4633211111110 126999999754
No 17
>cd03127 tetraspanin_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL). Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. The tetraspanin family contains CD9, CD63, CD37, CD53, CD82, CD151, and CD81, amongst others. Tetraspanins are involved in diverse processes such as cell activation and proliferation, adhesion and motility, differentiation, cancer, and others. Their various functions may relate to their ability to act as molecular facilitators, grouping specific cell-surface proteins and affecting formation and stability of signaling complexes. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web", which may also include integr
Probab=93.86 E-value=0.034 Score=42.59 Aligned_cols=37 Identities=16% Similarity=0.243 Sum_probs=26.5
Q ss_pred CCCchhhhhHhhhcCcccccccccCcccccchhhhccCCCCCCcccCC
Q 036418 180 NPNNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSPIESGCCTP 227 (335)
Q Consensus 180 d~~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lspIqSGCCKP 227 (335)
....|+.+|.-+ .|||+++. . ||.. ....+|.+||++
T Consensus 28 ~~~~~d~iq~~l----~CCG~~~~-~-----D~~~-~~~~vP~SCc~~ 64 (90)
T cd03127 28 FQEAMDALQSTF----ECCGVNGP-T-----DYLD-LRLLVPSSCCKG 64 (90)
T ss_pred HHHHHHHHHHhC----cCcCCCCh-H-----HHcc-CCCCCCHhhcCC
Confidence 355788887766 99999883 5 6543 225699999964
No 18
>COG4993 Gcd Glucose dehydrogenase [Carbohydrate transport and metabolism]
Probab=87.11 E-value=1.6 Score=47.05 Aligned_cols=66 Identities=20% Similarity=0.255 Sum_probs=47.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHH
Q 036418 71 SGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLLVM 149 (335)
Q Consensus 71 l~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLil~ 149 (335)
+.+.-+++.++|+.+++.|+|+..-+. .++. ++.|+.+++.+++= +++++--|++|.++++.-++-
T Consensus 3 ~~~~~~~~~~~gl~l~~gg~~l~~lgg--------s~yy-~iagl~~l~~~~ll----~~~k~aal~lya~~~~~t~~w 68 (773)
T COG4993 3 VTLTALVIALCGLALLIGGIWLVALGG--------SWYY-LIAGLVLLLSAWLL----LRRKRAALWLYALVLLGTLVW 68 (773)
T ss_pred hhHHHHHHHHHHHHHhccceeEEeeCC--------chHH-HHHHHHHHHHHHHH----hccchhHHHHHHHHHHHHhHH
Confidence 345667889999999999999877542 2343 34588888877764 788999999998655544443
No 19
>cd03152 CD9_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD9 family. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD9 is found in virtually all tissues and is potentially involved in developmental processes. It associates with the tetraspanins CD81 and CD63, as well as with some integrin, and has been shown to be involved in a variety of activation, adhesion, and cell motility functions, as well as cell-cell interactions - such as
Probab=85.70 E-value=0.63 Score=36.23 Aligned_cols=28 Identities=14% Similarity=0.163 Sum_probs=21.6
Q ss_pred CchhhhhHhhhcCcccccccccCcccccchhhhccCCCCCCccc
Q 036418 182 NNWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSPIESGCC 225 (335)
Q Consensus 182 ~~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lspIqSGCC 225 (335)
..|+.||.-| .|||.++ +. || .+|.+|+
T Consensus 32 ~~~d~iQ~~l----~CCG~~~-~~-----D~------~vP~SC~ 59 (84)
T cd03152 32 ETLKAIHFAL----DCCGPTG-GL-----EQ------FVTDTCP 59 (84)
T ss_pred HHHHHHHHHH----cCCCCCC-Cc-----cc------ccCCCCC
Confidence 4699998888 9999888 35 66 2788873
No 20
>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=79.73 E-value=2.1 Score=38.33 Aligned_cols=17 Identities=29% Similarity=0.528 Sum_probs=8.8
Q ss_pred HHHHHHHHHHHHHHHHh
Q 036418 74 LAMISFIVSLPILASVI 90 (335)
Q Consensus 74 ~Nfl~~l~Gi~ILg~GI 90 (335)
.+++.+++|+.+++.||
T Consensus 7 ~~i~~iilgilli~~gI 23 (191)
T PF04156_consen 7 ISIILIILGILLIASGI 23 (191)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 34455555555555554
No 21
>PF06770 Arif-1: Actin-rearrangement-inducing factor (Arif-1); InterPro: IPR010639 This family consists of several Nucleopolyhedrovirus actin-rearrangement-inducing factor (Arif-1) proteins. In response to Autographa californica nuclear polyhedrosis virus (AcMNPV) infection, a sequential rearrangement of the actin cytoskeleton occurs this is induced by Arif-1 []. Arif-1 is tyrosine phosphorylated and is located at the plasma membrane as a component of the actin rearrangement-inducing complex [].
Probab=78.04 E-value=12 Score=34.93 Aligned_cols=53 Identities=11% Similarity=0.030 Sum_probs=32.5
Q ss_pred HHHHHHHHHHHHhhheeecc-------CccccccccchHHHHHHHHHHHHHHHHHHHHhh
Q 036418 78 SFIVSLPILASVIWLLYMRD-------YDCENLLRLPRLQTGIGIALLFMFIISTAALFL 130 (335)
Q Consensus 78 ~~l~Gi~ILg~GIWl~~~~~-------~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~ 130 (335)
..++|++..++|+--.+++. ....+......++.+.|..++++++.|..+...
T Consensus 5 ~~v~g~~~~~~gl~G~~~~~yAllldye~g~~v~N~S~l~~vyG~~l~~~~~~~~~~~~~ 64 (196)
T PF06770_consen 5 LFVVGSAAFVFGLMGIVDERYALLLDYENGSSVFNCSGLVFVYGPLLLLVTTWGVYKITS 64 (196)
T ss_pred hHHHHHHHHHHHhhheecCceeeEEEecCCCccEeehHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34467777777765555532 112223333444577899999998888866664
No 22
>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=69.99 E-value=11 Score=38.87 Aligned_cols=43 Identities=16% Similarity=0.127 Sum_probs=32.0
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHH
Q 036418 104 LRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLL 147 (335)
Q Consensus 104 l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLi 147 (335)
++||..+ ++=++.+++.+++++|..|++||.+.++.++-++.+
T Consensus 207 ~Rw~~~l-~lL~~~lviC~~~l~gl~r~Sr~~li~~s~~g~l~l 249 (418)
T cd07912 207 YRWLAYL-GLLSLLLVICLVLLVGLARHSRCLLIVFSVCGLFAL 249 (418)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHH
Confidence 5677643 334567889999999999999999988865444443
No 23
>PF09323 DUF1980: Domain of unknown function (DUF1980); InterPro: IPR015402 Members of this occur in gene pairs with members of PF03773 from PFAM. The N-terminal region contains several predicted transmembrane helix regions while the few invariant residues (G, CxxD, and W) occur in the C-terminal region. Members of this family are found in a set of prokaryotic hypothetical proteins. Their exact function has not, as yet, been defined.
Probab=67.52 E-value=14 Score=33.31 Aligned_cols=41 Identities=24% Similarity=0.308 Sum_probs=26.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCCCc-------------cHHHHHHHHHHHHHH
Q 036418 109 LQTGIGIALLFMFIISTAALFLRPKF-------------PMPGFLLAVVPLLVM 149 (335)
Q Consensus 109 ilI~iGv~illVsllGc~GA~~es~c-------------lL~~Y~ilm~lLil~ 149 (335)
++++.++++++++++-.....+..+. ..+.|+++++-+++.
T Consensus 34 ~~~~a~i~l~ilai~q~~~~~~~~~~~~~~h~h~~~~~~~~~~y~l~~iPll~g 87 (182)
T PF09323_consen 34 LLYFAAILLLILAIVQLWRWFRPKRRKEDCHDHGHSKSKKLWSYFLFLIPLLIG 87 (182)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhcccccccccccccccccccHHHHHHHHHHHHH
Confidence 34556778888888888777766554 456666555544433
No 24
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=67.32 E-value=16 Score=27.75 Aligned_cols=34 Identities=18% Similarity=0.378 Sum_probs=25.2
Q ss_pred cchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 285 QACKDGFVRTLESKWRKLGLFLVLMSLFLFVSHL 318 (335)
Q Consensus 285 ~SCKaGvL~~lr~~W~~~~i~ni~~~i~Li~~~~ 318 (335)
+.|+.-..+.-|+.++.--++..+++++|++.=+
T Consensus 22 ~~C~~~~~k~qk~~~~~~~i~~~~~i~~l~v~~~ 55 (59)
T PF09889_consen 22 PKCREEYRKRQKRMRKTQYIFFGIFILFLAVWIF 55 (59)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4799999999999998777777666665555433
No 25
>PRK12585 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=67.05 E-value=20 Score=33.48 Aligned_cols=55 Identities=9% Similarity=0.037 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHH
Q 036418 72 GILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAA 127 (335)
Q Consensus 72 ~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~G 127 (335)
-++-.+++++|+.++.+|..-.+..+.--.+. .++...-.+|+.++++|.++..+
T Consensus 6 eiI~~vLLliG~~f~ligaIGLlRfPD~YtRL-HAATKa~TLGv~LILlgv~l~~~ 60 (197)
T PRK12585 6 EIIISIMILIGGLLSILAAIGVIRLPDVYTRT-HAAGISNTFGVSLLLFATVGYFF 60 (197)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHh-hccccchhhhHHHHHHHHHHHHH
Confidence 34445566666666665554444422111121 12222234577777777666443
No 26
>KOG4433 consensus Tweety transmembrane/cell surface protein [General function prediction only]
Probab=65.99 E-value=9.8 Score=39.95 Aligned_cols=45 Identities=20% Similarity=0.132 Sum_probs=33.8
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHH
Q 036418 104 LRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLLVM 149 (335)
Q Consensus 104 l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLil~ 149 (335)
.+||..+ ++=.+.++|-+++++|-.|+|+|++..|.+.=++.++.
T Consensus 208 ~RW~~~v-~lL~l~LvvC~v~vlglak~Skc~li~fsv~Gll~lvi 252 (526)
T KOG4433|consen 208 YRWLAYV-LLLTLLLVVCLVLVLGLAKRSKCLLIVFSVCGLLALVI 252 (526)
T ss_pred HHHHHHH-HHHHHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHHH
Confidence 4677543 34467888999999999999999999888655554444
No 27
>PF11297 DUF3098: Protein of unknown function (DUF3098); InterPro: IPR021448 This bacterial family of proteins has no known function.
Probab=65.96 E-value=8.3 Score=30.30 Aligned_cols=24 Identities=8% Similarity=0.062 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHHHHHHhhheeec
Q 036418 73 ILAMISFIVSLPILASVIWLLYMR 96 (335)
Q Consensus 73 ~~Nfl~~l~Gi~ILg~GIWl~~~~ 96 (335)
--|++.+++|++++.+|-+++...
T Consensus 5 k~Nyill~iG~~vIilGfilMsg~ 28 (69)
T PF11297_consen 5 KKNYILLAIGIAVIILGFILMSGG 28 (69)
T ss_pred hHHHHHHHHHHHHHHHHHHheeCC
Confidence 359999999999999999888764
No 28
>PF15345 TMEM51: Transmembrane protein 51
Probab=65.56 E-value=7.7 Score=37.03 Aligned_cols=21 Identities=29% Similarity=0.490 Sum_probs=15.9
Q ss_pred ccccchHHHHHHHHHHHHHHH
Q 036418 103 LLRLPRLQTGIGIALLFMFII 123 (335)
Q Consensus 103 ~l~~P~ilI~iGv~illVsll 123 (335)
.+...+++++.|+++|++|+.
T Consensus 57 t~SVAyVLVG~Gv~LLLLSIC 77 (233)
T PF15345_consen 57 TFSVAYVLVGSGVALLLLSIC 77 (233)
T ss_pred eEEEEEehhhHHHHHHHHHHH
Confidence 356677888999888888764
No 29
>KOG4812 consensus Golgi-associated protein/Nedd4 WW domain-binding protein [General function prediction only]
Probab=62.85 E-value=28 Score=33.70 Aligned_cols=21 Identities=14% Similarity=0.172 Sum_probs=16.3
Q ss_pred hHHHHHHHHHHHHHHHHHHHH
Q 036418 108 RLQTGIGIALLFMFIISTAAL 128 (335)
Q Consensus 108 ~ilI~iGv~illVsllGc~GA 128 (335)
++++++|.+|++.++++.+-.
T Consensus 227 wi~~vlG~ll~lr~~i~YikV 247 (262)
T KOG4812|consen 227 WIFLVLGLLLFLRGFINYIKV 247 (262)
T ss_pred HHHHHHHHHHHHHHHHhHHHH
Confidence 356788999999999887643
No 30
>PF06638 Strabismus: Strabismus protein; InterPro: IPR009539 This family consists of several strabismus (STB) or Van Gogh-like (VANGL) proteins 1 and 2. The exact function of this family is unknown. It is thought, however that STB1 gene and STB2 may be potent tumour suppressor gene candidates [].; GO: 0007275 multicellular organismal development, 0016021 integral to membrane
Probab=59.85 E-value=54 Score=34.70 Aligned_cols=34 Identities=15% Similarity=0.208 Sum_probs=19.4
Q ss_pred cchHHHHHHHHHHHHHHHHHHHHhhCCCccH-HHHHH
Q 036418 106 LPRLQTGIGIALLFMFIISTAALFLRPKFPM-PGFLL 141 (335)
Q Consensus 106 ~P~ilI~iGv~illVsllGc~GA~~es~clL-~~Y~i 141 (335)
..++-+++=.+||++|..... +++.+.-| .+|++
T Consensus 132 GllislafKLliLlig~WAlf--~R~~~a~lPRif~f 166 (505)
T PF06638_consen 132 GLLISLAFKLLILLIGTWALF--FRRPRADLPRIFVF 166 (505)
T ss_pred ceeHHHHHHHHHHHHHHHHHh--cCcccCCCchhHHH
Confidence 344556667777777766655 45555443 34443
No 31
>PF03729 DUF308: Short repeat of unknown function (DUF308); InterPro: IPR005325 This represents a group of short repeats that occurs in a limited number of membrane proteins. It may divide further in short repeats of around 7-10 residues of the pattern G-#-X(2)-#(2)-X (#=hydrophobic).
Probab=58.96 E-value=47 Score=24.14 Aligned_cols=47 Identities=28% Similarity=0.301 Sum_probs=33.7
Q ss_pred HHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCCC
Q 036418 81 VSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRPK 133 (335)
Q Consensus 81 ~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~ 133 (335)
.|+..+..|+++...++. ....+...+|+.+++-|+.....+.++++
T Consensus 2 ~Gil~iv~Gi~~l~~p~~------~~~~~~~i~g~~~i~~Gi~~l~~~~~~~~ 48 (72)
T PF03729_consen 2 SGILFIVLGILLLFNPDA------SLAALAIILGIWLIISGIFQLISAFRRRK 48 (72)
T ss_pred HHHHHHHHHHHHHHhHHH------HHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 578888889988886531 11223356799999999999988888444
No 32
>PF04103 CD20: CD20-like family; InterPro: IPR007237 This family includes the CD20 protein and the beta subunit of the high affinity receptor for IgE Fc. The high affinity receptor for IgE is a tetrameric structure consisting of a single IgE-binding alpha subunit, a single beta subunit, and two disulphide-linked gamma subunits. The alpha subunit of Fc epsilon RI and most Fc receptors are homologous members of the Ig superfamily. By contrast, the beta and gamma subunits from Fc epsilon RI are not homologous to the Ig superfamily. Both molecules have four putative transmembrane segments and a probably topology where both amino- and carboxy termini protrude into the cytoplasm []. This family also includes LR8 like proteins from humans, mice and rats. The function of the human LR8 protein is unknown although it is known to be strongly expressed in the lung fibroblasts []. This family also includes sarcospan is a transmembrane component of dystrophin-associated glycoprotein. Loss of the sarcoglycan complex and sarcospan alone is sufficient to cause muscular dystrophy. The role of the sarcoglycan complex and sarcospan is thought to be to strengthen the dystrophin axis connecting the basement membrane with the cytoskeleton []. ; GO: 0016021 integral to membrane; PDB: 2OSL_Q 3BKY_P 3PP4_P.
Probab=57.64 E-value=3.4 Score=34.77 Aligned_cols=64 Identities=14% Similarity=0.057 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHH
Q 036418 78 SFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVP 145 (335)
Q Consensus 78 ~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~l 145 (335)
-.++|+..+..|+.+...... .......|+ -.|++.++.|.+|.....+.+++++..++.+-++
T Consensus 6 qI~lGi~~i~lGi~~~~~~~~-~~~~~~~pi---W~G~~fiisG~l~i~s~k~~~~~lv~~~l~lsi~ 69 (150)
T PF04103_consen 6 QILLGILSIVLGIIALSLSSS-VLVYIGYPI---WGGIFFIISGILGIASEKKPTKCLVIASLVLSIV 69 (150)
T ss_dssp --------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHhH-HHHHhcccH---HHHHHHHhhHHHHHHHhcCCcccchHHHHHHHHH
Confidence 456778888888776654322 112233444 3488889999999998888888888777644333
No 33
>PF11139 DUF2910: Protein of unknown function (DUF2910); InterPro: IPR021315 Some members in this bacterial family annotate the proteins as cytochrome C biogenesis proteins however this cannot be confirmed. Currently no function for this family is known.
Probab=54.69 E-value=39 Score=30.87 Aligned_cols=101 Identities=8% Similarity=0.068 Sum_probs=49.5
Q ss_pred HHHHHHHHHHHHHHhhheeecc---C--ccccc-----cccchHHHHHHHHHHHHH------HHHHHHHhhCCC------
Q 036418 76 MISFIVSLPILASVIWLLYMRD---Y--DCENL-----LRLPRLQTGIGIALLFMF------IISTAALFLRPK------ 133 (335)
Q Consensus 76 fl~~l~Gi~ILg~GIWl~~~~~---~--~c~~~-----l~~P~ilI~iGv~illVs------llGc~GA~~es~------ 133 (335)
.+-+++|+.+++.|++...++. . .-.+. ...|.-.+.+|..+.++. .++-.+.+-++.
T Consensus 70 ~~~l~lGv~ll~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~~~~~~~~~laa~~~I~~~~~~~~~~ 149 (214)
T PF11139_consen 70 WLQLVLGVLLLLLAVRVWRRRPRPDPPSRPPRWLARLDSASPGGAFWLGFVLGLANPKTMLPYLAAIAIIAASGLSPGTQ 149 (214)
T ss_pred HHHHHHHHHHHHHHHHHhhcccccCCCCCchhhhhhhhcCCchhHHHHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHH
Confidence 3456788888888888765541 0 00010 112222244455443322 223334444433
Q ss_pred -ccHHHHHHHHHHHHHHHHHHHHhhcccccccccccCchhHHhhcC
Q 036418 134 -FPMPGFLLAVVPLLVMLTVGLALLGAYDMESRKILASPRWFKLKV 178 (335)
Q Consensus 134 -clL~~Y~ilm~lLil~li~~faf~gg~~v~~r~L~DYs~WLq~rv 178 (335)
..+..|..+++......+..+.+.+.+ .++.++....|+++|.
T Consensus 150 ~~~l~~y~~i~~~~~~~pll~~~~~~~r--~~~~l~r~~~wl~~~~ 193 (214)
T PF11139_consen 150 VVALVVYCLIASLPALLPLLAYLVAPER--AEPWLERLRSWLRRHS 193 (214)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhHHH--HHHHHHHHHHHHHHcc
Confidence 223344444444444444566665222 2346677889999885
No 34
>PF07086 DUF1352: Protein of unknown function (DUF1352); InterPro: IPR009787 This family consists of several hypothetical eukaryotic proteins of around 190 residues in length. The function of this family is unknown.
Probab=52.99 E-value=1.5e+02 Score=27.48 Aligned_cols=77 Identities=9% Similarity=0.025 Sum_probs=39.6
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHH
Q 036418 64 ALRAKSLSGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAV 143 (335)
Q Consensus 64 ~~~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm 143 (335)
-+.+|.++ +++++++++.++-++.++...++.... ..-++|-++ -.++ ++.+++|..|--|.+.-+|..|.+..
T Consensus 34 Ks~lk~l~-~~h~ll~l~~~a~v~~~~L~~i~~~~~-p~p~~Wey~-~~lS---~ip~~~G~~s~~rN~i~~l~~y~~~~ 107 (186)
T PF07086_consen 34 KSRLKKLI-LFHALLWLLMAAKVSVDILLEISELQI-PSPYQWEYI-WCLS---LIPSLLGLLSLRRNNISLLRLYMIGS 107 (186)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHhhcccc-CChhHHHHH-HHHH---HHHHHHHHHhcccchHHHHHHHHHHH
Confidence 35556554 567777777777677776654432211 011223232 2224 44455565544444455666776544
Q ss_pred HHH
Q 036418 144 VPL 146 (335)
Q Consensus 144 ~lL 146 (335)
+++
T Consensus 108 ~~~ 110 (186)
T PF07086_consen 108 SLF 110 (186)
T ss_pred HHH
Confidence 443
No 35
>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=52.73 E-value=28 Score=29.88 Aligned_cols=48 Identities=17% Similarity=0.166 Sum_probs=25.2
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHhh
Q 036418 105 RLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 105 ~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLil~li~~faf~ 157 (335)
.+...++.+|.+++.+|++ ++.++.++.+|+++=++.+++..++|+..
T Consensus 13 ~~al~lif~g~~vmy~gi~-----f~~~~~im~ifmllG~L~~l~S~~VYfwI 60 (114)
T PF11023_consen 13 TFALSLIFIGMIVMYIGIF-----FKASPIIMVIFMLLGLLAILASTAVYFWI 60 (114)
T ss_pred HHHHHHHHHHHHHHhhhhh-----hcccHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445556667777766432 35555555555544433333344555555
No 36
>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=52.01 E-value=28 Score=29.73 Aligned_cols=58 Identities=19% Similarity=0.179 Sum_probs=30.8
Q ss_pred cccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHH
Q 036418 57 APALSINALRAKSLSGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFI 122 (335)
Q Consensus 57 ~~~~~~~~~~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsl 122 (335)
.|.+.++ .|.+. +-++.++.|..+|.+|+.+....- +-.+--.++. +++|+++++=|+
T Consensus 34 ~P~~k~p---wK~I~--la~~Lli~G~~li~~g~l~~~~~i-~~~~~~~~~l--lilG~L~fIPG~ 91 (115)
T PF05915_consen 34 HPKVKIP---WKSIA--LAVFLLIFGTVLIIIGLLLFFGHI-DGDRDRGWAL--LILGILCFIPGF 91 (115)
T ss_pred hhhhHHH---HHHHH--HHHHHHHHHHHHHHHHHHHHhccc-CCCCcccchH--HHHHHHHHhccH
Confidence 4555444 34333 345566778888888877766531 1111112333 556776665543
No 37
>PRK02935 hypothetical protein; Provisional
Probab=51.37 E-value=39 Score=28.75 Aligned_cols=48 Identities=19% Similarity=0.184 Sum_probs=25.3
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHhh
Q 036418 105 RLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 105 ~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLil~li~~faf~ 157 (335)
.+...++.+|.+++.+|++ ++++..++.+|+++=++.+++-.++|...
T Consensus 14 t~aL~lvfiG~~vMy~Gif-----f~~~~~~m~ifm~~G~l~~l~S~vvYFwi 61 (110)
T PRK02935 14 TFALSLVFIGFIVMYLGIF-----FRESIIIMTIFMLLGFLAVIASTVVYFWI 61 (110)
T ss_pred HHHHHHHHHHHHHHHHHHH-----hcccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3444556667777766533 35666665555544333333334455554
No 38
>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=49.49 E-value=8.9 Score=39.10 Aligned_cols=41 Identities=15% Similarity=0.047 Sum_probs=28.6
Q ss_pred cccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHH
Q 036418 104 LRLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFLLAVVP 145 (335)
Q Consensus 104 l~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ilm~l 145 (335)
++|+..+..+ ++.+++.+++++|..|++||++..+.++-++
T Consensus 184 yRw~~~~~lL-~l~l~icl~~l~glar~Sk~~li~~~v~gll 224 (406)
T PF04906_consen 184 YRWLAYLGLL-ILDLVICLLGLLGLARQSKCLLIVFSVLGLL 224 (406)
T ss_pred HHHHHHHHHH-HHHHHHHHHHHHHHHhcCcceEEEeeeccHH
Confidence 4566543322 4667788889999999999999876544333
No 39
>cd03151 CD81_like_LEL Tetraspanin, extracellular domain or large extracellular loop (LEL), CD81_like subfamily. Tetraspanins are trans-membrane proteins with 4 trans-membrane segments. Both the N- and C-termini lie on the intracellular side of the membrane. This alignment model spans the extracellular domain between the 3rd and 4th trans-membrane segment. Tetraspanins are involved in diverse processes and their various functions may relate to their ability to act as molecular facilitators. Tetraspanins associate laterally with one another and cluster dynamically with numerous parnter domains in membrane microdomains, forming a network of multimolecular complexes, the "tetraspanin web". CD81, also referred to as Target for anti-proliferative antigen-1, TAPA-1, is found in virtually all tissues, may be involved in regulation of cell growth and has been described as a member of the CD19/CD21/Leu-13 signal transduction complex identified on B cells (the B-Cell co-receptor).
Probab=48.97 E-value=5.1 Score=31.37 Aligned_cols=30 Identities=10% Similarity=-0.079 Sum_probs=20.1
Q ss_pred chhhhhHhhhcCcccccccccCcccccchhhhccCCCCCCccc
Q 036418 183 NWNNIKSCIYDTKICDDLFLKSLTVKSYDFTMKKLSPIESGCC 225 (335)
Q Consensus 183 ~W~~I~sCL~~s~~C~gl~~~~~~~~~~D~~~~~lspIqSGCC 225 (335)
.|+.||.-| .|||.++. . |+.. +.++..|.
T Consensus 33 ~~d~iQ~~l----~CCG~~~~-~-----d~~~---~~~~~~C~ 62 (84)
T cd03151 33 VLKTFHSTL----DCCGKGNL-T-----ALLS---LLSTDLCP 62 (84)
T ss_pred HHHHHHHhc----CCCCCCCC-c-----chHH---HHHhCCCC
Confidence 578777666 99999883 4 2211 45777883
No 40
>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=47.23 E-value=56 Score=29.09 Aligned_cols=16 Identities=25% Similarity=0.220 Sum_probs=7.9
Q ss_pred HHHHHHHHHHHHHHHH
Q 036418 109 LQTGIGIALLFMFIIS 124 (335)
Q Consensus 109 ilI~iGv~illVsllG 124 (335)
+.+++|+++++.|+++
T Consensus 10 ~~iilgilli~~gI~~ 25 (191)
T PF04156_consen 10 ILIILGILLIASGIAA 25 (191)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 3344555555544444
No 41
>PF11127 DUF2892: Protein of unknown function (DUF2892); InterPro: IPR021309 This family is conserved in bacteria. The function is not known.
Probab=46.29 E-value=42 Score=25.04 Aligned_cols=21 Identities=29% Similarity=0.289 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHh
Q 036418 109 LQTGIGIALLFMFIISTAALF 129 (335)
Q Consensus 109 ilI~iGv~illVsllGc~GA~ 129 (335)
++..+|+.+++-++.|+|...
T Consensus 35 ~~~~~g~~ll~~g~~g~Cp~~ 55 (66)
T PF11127_consen 35 LLGFVGAMLLVTGITGFCPLY 55 (66)
T ss_pred HHHHHHHHHHHHHHHCcCHhH
Confidence 445667778888888877554
No 42
>PF12273 RCR: Chitin synthesis regulation, resistance to Congo red; InterPro: IPR020999 RCR proteins are ER membrane proteins that regulate chitin deposition in fungal cell walls. Although chitin, a linear polymer of beta-1,4-linked N-acetylglucosamine, constitutes only 2% of the cell wall it plays a vital role in the overall protection of the cell wall against stress, noxious chemicals and osmotic pressure changes. Congo red is a cell wall-disrupting benzidine-type dye extensively used in many cell wall mutant studies that specifically targets chitin in yeast cells and inhibits growth. RCR proteins render the yeasts resistant to Congo red by diminishing the content of chitin in the cell wall []. RCR proteins are probably regulating chitin synthase III interact directly with ubiquitin ligase Rsp5, and the VPEY motif is necessary for this, via interaction with the WW domains of Rsp5 [].
Probab=40.07 E-value=33 Score=29.19 Aligned_cols=7 Identities=29% Similarity=0.876 Sum_probs=4.5
Q ss_pred CchhHHh
Q 036418 169 ASPRWFK 175 (335)
Q Consensus 169 DYs~WLq 175 (335)
.+..||.
T Consensus 35 ~gt~w~~ 41 (130)
T PF12273_consen 35 YGTRWMA 41 (130)
T ss_pred CCceecC
Confidence 4567777
No 43
>PF11712 Vma12: Endoplasmic reticulum-based factor for assembly of V-ATPase; InterPro: IPR021013 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. V-ATPases (also known as V1V0-ATPase or vacuolar ATPase) (3.6.3.14 from EC) are found in the eukaryotic endomembrane system, and in the plasma membrane of prokaryotes and certain specialised eukaryotic cells. V-ATPases hydrolyse ATP to drive a proton pump, and are involved in a variety of vital intra- and inter-cellular processes such as receptor mediated endocytosis, protein trafficking, active transport of metabolites, homeostasis and neurotransmitter release []. V-ATPases are composed of two linked complexes: the V1 complex (subunits A-H) contains the catalytic core that hydrolyses ATP, while the V0 complex (subunits a, c, c', c'', d) forms the membrane-spanning pore. V-ATPases may have an additional role in membrane fusion through binding to t-SNARE proteins []. The yeast vacuolar proton-translocating ATPase (V-ATPase) is the best characterised member of the V-ATPase family. A total of thirteen genes are required for encoding the subunits of the enzyme complex itself and an additional three for providing factors necessary for the assembly of the whole. Vma12 is one of these latter, all three of which are localised to the endoplasmic reticulum [].
Probab=38.01 E-value=1.1e+02 Score=26.57 Aligned_cols=22 Identities=9% Similarity=0.215 Sum_probs=14.9
Q ss_pred hhHHH-HHHHHHHHHHHHHHHHH
Q 036418 63 NALRA-KSLSGILAMISFIVSLP 84 (335)
Q Consensus 63 ~~~~v-K~ll~~~Nfl~~l~Gi~ 84 (335)
..+.+ +-+..++|+++-+++..
T Consensus 71 ~~k~~~~qls~v~Nilvsv~~~~ 93 (142)
T PF11712_consen 71 ELKSVKRQLSTVFNILVSVFAVF 93 (142)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHH
Confidence 34444 66777899987776644
No 44
>PF10724 DUF2516: Protein of unknown function (DUF2516); InterPro: IPR019662 This entry represents a conserved protein in Actinobacteria. The function is not known.
Probab=37.84 E-value=97 Score=25.90 Aligned_cols=27 Identities=30% Similarity=0.321 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhheee
Q 036418 69 SLSGILAMISFIVSLPILASVIWLLYM 95 (335)
Q Consensus 69 ~ll~~~Nfl~~l~Gi~ILg~GIWl~~~ 95 (335)
.+..+.+.+.+++++.+++.++|-.++
T Consensus 3 ~l~~~~~~i~~~l~~~~~~~~v~Alv~ 29 (100)
T PF10724_consen 3 FLFQIQGWILLALSLVALVLAVWALVD 29 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 456677888899999999999998876
No 45
>PF11947 DUF3464: Protein of unknown function (DUF3464); InterPro: IPR021855 This family of proteins are functionally uncharacterised. This protein is found in bacteria and eukaryotes. Proteins in this family are typically between 137 to 196 amino acids in length.
Probab=37.81 E-value=2.6e+02 Score=25.20 Aligned_cols=54 Identities=7% Similarity=0.110 Sum_probs=26.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHH
Q 036418 65 LRAKSLSGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIIS 124 (335)
Q Consensus 65 ~~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllG 124 (335)
..+|-+ .++--+-..+|+.++.+.-|+......+ -.|++.+++-.+.|.+|++|
T Consensus 60 RM~rRm-~~~~GiP~~lG~~~f~~~y~l~~~~~~d-----vP~~~~~~~S~~~Fg~gllG 113 (153)
T PF11947_consen 60 RMLRRM-AVFVGIPTALGVAVFVVFYYLKSRQIVD-----VPPWAVLLVSLVFFGLGLLG 113 (153)
T ss_pred HHHHHH-HHHhchHHHHHHHHHHHHHHHHhccccc-----cCchHHHHHHHHHHHHHHHh
Confidence 334443 3444555667777666666665543211 22333333344455555555
No 46
>PF03142 Chitin_synth_2: Chitin synthase; InterPro: IPR004835 Chitin synthase (2.4.1.16 from EC), also known as chitin-UDP acetyl-glucosaminyl transferase, is a plasma membrane-bound protein which catalyses the conversion of UDP-N-acettyl-D-glucosamine and {(1,4)-(N-acetyl- beta-D-glucosaminyl)}(N) to UDP and {(1,4)-(N-acetyl-beta-D- glucosaminyl)}(N+1). It plays a major role in cell wall biogenesis. ; GO: 0016758 transferase activity, transferring hexosyl groups
Probab=37.54 E-value=90 Score=33.27 Aligned_cols=19 Identities=21% Similarity=0.443 Sum_probs=8.1
Q ss_pred HHHHHHHHHHHHHHHHhhh
Q 036418 74 LAMISFIVSLPILASVIWL 92 (335)
Q Consensus 74 ~Nfl~~l~Gi~ILg~GIWl 92 (335)
++++..+++-+.+..-+++
T Consensus 401 i~Li~tiI~P~ti~~iIyl 419 (527)
T PF03142_consen 401 IDLIGTIILPATIVFIIYL 419 (527)
T ss_pred HHHHHHHHHHHHHHHHHHH
Confidence 4555444443333333443
No 47
>COG2149 Predicted membrane protein [Function unknown]
Probab=36.61 E-value=1.8e+02 Score=25.32 Aligned_cols=16 Identities=31% Similarity=0.551 Sum_probs=10.8
Q ss_pred HHHHHH-HHHHHHHHHh
Q 036418 75 AMISFI-VSLPILASVI 90 (335)
Q Consensus 75 Nfl~~l-~Gi~ILg~GI 90 (335)
.|+.|+ .++.++++|+
T Consensus 25 TFLAWiRTsLallafGv 41 (120)
T COG2149 25 TFLAWIRTSLALLAFGV 41 (120)
T ss_pred HHHHHHHHHHHHHHHHH
Confidence 466776 6677777765
No 48
>PRK12660 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=36.35 E-value=1e+02 Score=26.11 Aligned_cols=49 Identities=8% Similarity=-0.016 Sum_probs=27.6
Q ss_pred HHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHH
Q 036418 75 AMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTA 126 (335)
Q Consensus 75 Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~ 126 (335)
|++..+.+..++++|+|+..+++. .+. -...-++.-|+.++++++-++-
T Consensus 2 ~~~~~~~~~~Lf~iGiy~il~rnl--i~~-ligl~im~~avnL~~v~~g~~~ 50 (114)
T PRK12660 2 NLILLLVIGFLVFIGTYMILSINL--IRI-VIGISIYTHAGNLIIMSMGGYG 50 (114)
T ss_pred chHHHHHHHHHHHHHHHHHHhhhH--HHH-HHHHHHHHHHHHHHHHHHHhhc
Confidence 567777888899999998754320 011 0111234456666666555443
No 49
>PF05374 Mu-conotoxin: Mu-Conotoxin; InterPro: IPR008036 This entry represents Mu-type conotoxins. Cone snail toxins, conotoxins, are small peptides with disulphide connectivity, that target ion-channels or G-protein coupled receptors. Based on the number and pattern of disulphide bonds and biological activities, conotoxins can be classified into several families []. Omega, delta and kappa families of conotoxins have a knottin or inhibitor cystine knot scaffold. The knottin scaffold is a very special disulphide through disulphide knot, in which the III-VI disulphide bond crosses the macrocycle formed by two other disulphide bonds (I-IV and II-V) and the interconnecting backbone segments, where I-VI indicates the six cysteine residues starting from the N terminus. The disulphide bonding network as well as specific amino acids in inter-cysteine loops provide specificity of conotoxin []. The cysteine arrangement is the same for omega, delta and kappa families, but omega conotoxins are calcium channel blockers, whereas delta conotoxins delay the inactivation of sodium channels and kappa conotoxins are potassium channel blockers []. Mu conotoxins have two types of cysteine arrangement, but the knottin scaffold is not observed. Conotoxin gm9a, a putative 27-residue polypeptide encoded by Conus gloriamaris, has been shown to adopt an inhibitory cystine knot motif constrained by three disulphide bonds [, ].Mu conotoxins target the voltage-gated sodium channels, preferential skeletal muscle [], and are useful probes for investigating voltage-dependent sodium channels of excitable tissues []. Alpha conotoxins have two types of cysteine arrangement [] and are competitive nicotinic acetylcholine receptor antagonists. ; GO: 0019871 sodium channel inhibitor activity, 0009405 pathogenesis, 0005576 extracellular region; PDB: 1R9I_A 1GIB_A 1TCJ_A 1TCG_A 1TCK_A 1TCH_A.
Probab=35.66 E-value=16 Score=22.58 Aligned_cols=10 Identities=50% Similarity=1.537 Sum_probs=8.0
Q ss_pred cccCCCCCCC
Q 036418 223 GCCTPPAVCG 232 (335)
Q Consensus 223 GCCKPPt~Cg 232 (335)
-||+||.+|.
T Consensus 2 ~CC~~Pk~Ck 11 (22)
T PF05374_consen 2 DCCGPPKSCK 11 (22)
T ss_dssp TSSSSSTGGC
T ss_pred cccCCCcccc
Confidence 3899998885
No 50
>PRK07946 putative monovalent cation/H+ antiporter subunit C; Reviewed
Probab=35.22 E-value=49 Score=30.09 Aligned_cols=48 Identities=19% Similarity=0.220 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHH
Q 036418 74 LAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIIS 124 (335)
Q Consensus 74 ~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllG 124 (335)
.|++..++...++++|+|+..+++. .+. -....++.-|+.+++++.-|
T Consensus 3 ~~l~~~i~~gvL~~~G~Ylll~rnL--ir~-iiGl~il~~~vnLlii~~G~ 50 (163)
T PRK07946 3 ANLGLLVAIGVLTSAGVYLLLERSL--TRM-LLGLLLIGNGVNLLILTAGG 50 (163)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccH--HHH-HHHHHHHHHHHHHHHHHHhc
Confidence 4677778888889999998885421 111 12234467787777776654
No 51
>PF15125 TMEM238: TMEM238 protein family
Probab=33.87 E-value=1.1e+02 Score=23.95 Aligned_cols=25 Identities=20% Similarity=0.473 Sum_probs=15.1
Q ss_pred cccccccchHHHHHHHHHHHHHHHH
Q 036418 100 CENLLRLPRLQTGIGIALLFMFIIS 124 (335)
Q Consensus 100 c~~~l~~P~ilI~iGv~illVsllG 124 (335)
|..++-..+++.++|..++++|+++
T Consensus 3 C~~~f~laV~fD~vGl~~Ll~GiFa 27 (65)
T PF15125_consen 3 CRHFFWLAVVFDVVGLVMLLTGIFA 27 (65)
T ss_pred eeehhHHHHHHHHhhHHHHHHHHhc
Confidence 4444445555666677777776665
No 52
>COG3247 HdeD Uncharacterized conserved protein [Function unknown]
Probab=33.84 E-value=1.7e+02 Score=27.12 Aligned_cols=51 Identities=18% Similarity=0.173 Sum_probs=35.7
Q ss_pred HHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCCC
Q 036418 77 ISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRPK 133 (335)
Q Consensus 77 l~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es~ 133 (335)
.+.+.|+.++..|++....+.. +.-.+...+|+++++.|.+=.++++.+++
T Consensus 21 ~~l~~Gv~lii~Gl~~l~~P~~------s~~~l~~~vG~~lli~Gi~~ii~af~~r~ 71 (185)
T COG3247 21 WVLLLGVLLIILGLLALFNPAI------STVALVYVVGILLLISGIIEIISAFGNRS 71 (185)
T ss_pred HHHHHHHHHHHHHHHHHHhHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence 3467788888888887775421 11223356799999999988888887766
No 53
>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=33.64 E-value=54 Score=36.38 Aligned_cols=51 Identities=16% Similarity=0.146 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHHH-HHHH-------------HhhCCCccH--HHHHHHHHHHHHHHHHHHHhhcc
Q 036418 109 LQTGIGIALLFMFII-STAA-------------LFLRPKFPM--PGFLLAVVPLLVMLTVGLALLGA 159 (335)
Q Consensus 109 ilI~iGv~illVsll-Gc~G-------------A~~es~clL--~~Y~ilm~lLil~li~~faf~gg 159 (335)
.++.+-++++++|++ |+|| .=.+.+||+ ..+.++.+.++.++.+++.++|+
T Consensus 422 ~~llLIv~~~~lGLl~G~~G~~~~~~p~~r~c~~~tGg~~Lm~gv~~~Flf~~~l~l~~~~~Fl~G~ 488 (806)
T PF05478_consen 422 CVLLLIVLCLLLGLLCGCCGYRRRADPTDRGCSSNTGGNFLMAGVGLSFLFSWFLMLLVLFYFLVGG 488 (806)
T ss_pred HHHHHHHHHHHHHHHHhhccCCCCCCCcccCCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
No 54
>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=33.46 E-value=2.9 Score=36.43 Aligned_cols=55 Identities=16% Similarity=0.248 Sum_probs=19.4
Q ss_pred ccccCCCCcccccCcchhhH--------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 271 DTWTNDRNVLCYDCQACKDG--------FVRTLESKWRKLGLFLVLMSLFLFVSHLFLFLATMW 326 (335)
Q Consensus 271 ~~WsNd~~~LCy~C~SCKaG--------vL~~lr~~W~~~~i~ni~~~i~Li~~~~~~~~~~~~ 326 (335)
+.||-|-+ .|-+|.|||+- .-..--..|+-+..+.-.++.+++++-++.++++-|
T Consensus 40 ~sWs~dLd-kCm~CssC~~~P~S~~C~~C~a~p~~p~~l~~pi~~sal~v~lVl~llsg~lv~r 102 (129)
T PF12191_consen 40 SSWSADLD-KCMSCSSCPAYPKSPFCQGCPAAPPAPFPLLWPILGSALSVVLVLALLSGFLVWR 102 (129)
T ss_dssp EEEETTTT-EEEECCCHCC-TT-CCCCCHSS-SSS-SSSS------------------------
T ss_pred CcCccccc-ccccCccCCCCCCCccccCCCCCCCCCcceehhhhhhHHHHHHHHHHHHHHHHHh
Confidence 35888765 89999999853 333333347766666555544444444444444444
No 55
>PF04854 DUF624: Protein of unknown function, DUF624; InterPro: IPR006938 This family consists of uncharacterised or hypothetical bacterial proteins.
Probab=32.45 E-value=39 Score=25.74 Aligned_cols=21 Identities=14% Similarity=0.252 Sum_probs=16.9
Q ss_pred HHHHHHHH---HHHHHHHHHHhhh
Q 036418 72 GILAMISF---IVSLPILASVIWL 92 (335)
Q Consensus 72 ~~~Nfl~~---l~Gi~ILg~GIWl 92 (335)
..+|++++ ++|++++++|--.
T Consensus 2 ~~ln~lwl~~~l~~l~v~tigPA~ 25 (77)
T PF04854_consen 2 VVLNLLWLLFTLAGLPVFTIGPAT 25 (77)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Confidence 46888888 9999999988643
No 56
>PRK15035 cytochrome bd-II oxidase subunit 1; Provisional
Probab=32.26 E-value=1.3e+02 Score=32.10 Aligned_cols=49 Identities=14% Similarity=0.259 Sum_probs=36.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhCC----CccHHHHHHHHHHHHHHHHHHHHhh
Q 036418 109 LQTGIGIALLFMFIISTAALFLRP----KFPMPGFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 109 ilI~iGv~illVsllGc~GA~~es----~clL~~Y~ilm~lLil~li~~faf~ 157 (335)
+++++|.++++++++|+.-..|+. |++|....+.+.+=+++...|.++.
T Consensus 392 iMVglG~l~~ll~~~~l~~~~r~~l~~~rw~L~~~~~~~Plp~iA~~~GWi~t 444 (514)
T PRK15035 392 IMVGCGSLLLLVMLIALVQTLRGKIDQHRWVLKMALWSLPLPWIAIEAGWFMT 444 (514)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCcccCcHHHHHHHHHHHHHHHHHHHhHHHc
Confidence 688999999999999997665444 6777776655555555566787775
No 57
>PF10953 DUF2754: Protein of unknown function (DUF2754); InterPro: IPR020490 This entry contains membrane proteins with no known function.
Probab=32.03 E-value=16 Score=28.04 Aligned_cols=37 Identities=19% Similarity=0.304 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 293 RTLESKWRKLGLFLVLMSLFLFVSHLFLFLATMWELV 329 (335)
Q Consensus 293 ~~lr~~W~~~~i~ni~~~i~Li~~~~~~~~~~~~~~~ 329 (335)
..+||+|+.-++-.-.++|+==++-+++|=+-=|..+
T Consensus 5 ~kirrdwhyyafa~glifilngvvgllgfeakgwqty 41 (70)
T PF10953_consen 5 VKIRRDWHYYAFAIGLIFILNGVVGLLGFEAKGWQTY 41 (70)
T ss_pred hHhhhhhHHHHHHHHHHHHhhchhhhceecccCceee
Confidence 4689999999887777777767777888755544433
No 58
>PF09972 DUF2207: Predicted membrane protein (DUF2207); InterPro: IPR018702 This domain has no known function.
Probab=31.13 E-value=73 Score=31.91 Aligned_cols=15 Identities=33% Similarity=0.350 Sum_probs=8.9
Q ss_pred HHHHHHHHHHHHHHH
Q 036418 111 TGIGIALLFMFIIST 125 (335)
Q Consensus 111 I~iGv~illVsllGc 125 (335)
+++|+++++++++++
T Consensus 401 ~~~~~i~~i~~~~~~ 415 (511)
T PF09972_consen 401 IILGIILLILGFILL 415 (511)
T ss_pred HHHHHHHHHHHHHHH
Confidence 455666666666555
No 59
>PRK15097 cytochrome d terminal oxidase subunit 1; Provisional
Probab=30.96 E-value=1.2e+02 Score=32.29 Aligned_cols=49 Identities=12% Similarity=0.198 Sum_probs=35.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhC----CCccHHHHHHHHHHHHHHHHHHHHhh
Q 036418 109 LQTGIGIALLFMFIISTAALFLR----PKFPMPGFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 109 ilI~iGv~illVsllGc~GA~~e----s~clL~~Y~ilm~lLil~li~~faf~ 157 (335)
+++++|.++++++++|+.-..|+ +|++|+...+.+.+=+++...|.++.
T Consensus 392 iMVg~G~l~~~l~~~~l~l~~r~~l~~~rw~L~~~~~~~plp~iA~~~GWi~t 444 (522)
T PRK15097 392 IMVACGFLMLAIIALSFWSVIRNRIGEKKWLLRAALYGIPLPWIAVEAGWFVA 444 (522)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCccccCcHHHHHHHHHHHHHHHHHHhhhhhe
Confidence 78899999999999998766544 36677666555555555556777774
No 60
>PF02656 DUF202: Domain of unknown function (DUF202); InterPro: IPR003807 This entry describes proteins of unknown function.
Probab=27.79 E-value=1.7e+02 Score=22.07 Aligned_cols=14 Identities=14% Similarity=0.430 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHHHH
Q 036418 112 GIGIALLFMFIIST 125 (335)
Q Consensus 112 ~iGv~illVsllGc 125 (335)
.+|.+.+++|++-.
T Consensus 47 ~~~~~~~~~~~~~~ 60 (73)
T PF02656_consen 47 VLGLLLIVLGLLTL 60 (73)
T ss_pred HHHHHHHHHHHHHH
Confidence 33444444444433
No 61
>PF15202 Adipogenin: Adipogenin
Probab=27.70 E-value=1.2e+02 Score=24.07 Aligned_cols=26 Identities=23% Similarity=0.441 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhh
Q 036418 307 VLMSLFLFVSHLFLFLATMWELVVVK 332 (335)
Q Consensus 307 i~~~i~Li~~~~~~~~~~~~~~~~~~ 332 (335)
.+++.+-+=|-+++|++..|.|+.+.
T Consensus 16 flvfwlclpv~lllfl~ivwlrflls 41 (81)
T PF15202_consen 16 FLVFWLCLPVGLLLFLLIVWLRFLLS 41 (81)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 34444555678999999999999764
No 62
>PF11177 DUF2964: Protein of unknown function (DUF2964); InterPro: IPR021347 This family of proteins with unknown function appears to be restricted to Proteobacteria.
Probab=27.56 E-value=1.7e+02 Score=22.60 Aligned_cols=24 Identities=8% Similarity=0.095 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 66 RAKSLSGILAMISFIVSLPILASV 89 (335)
Q Consensus 66 ~vK~ll~~~Nfl~~l~Gi~ILg~G 89 (335)
..|.++..+-.+..+.|+....-|
T Consensus 5 ~~RivlAtiavFiaLagl~~~I~G 28 (62)
T PF11177_consen 5 EYRIVLATIAVFIALAGLAAVIHG 28 (62)
T ss_pred hhHHHHHHHHHHHHHHHHHHHhhh
Confidence 346677777777788887766666
No 63
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=27.56 E-value=71 Score=21.63 Aligned_cols=21 Identities=19% Similarity=0.461 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhh
Q 036418 110 QTGIGIALLFMFIISTAALFL 130 (335)
Q Consensus 110 lI~iGv~illVsllGc~GA~~ 130 (335)
-+++|++++++++.|....++
T Consensus 12 Gl~~g~~l~~~~~tG~~~~f~ 32 (37)
T PF13706_consen 12 GLILGLLLFVIFLTGAVMVFR 32 (37)
T ss_pred HHHHHHHHHHHHHHhHHHHHH
Confidence 356799999999999877664
No 64
>PF11384 DUF3188: Protein of unknown function (DUF3188); InterPro: IPR021524 This bacterial family of proteins has no known function.
Probab=26.87 E-value=67 Score=23.50 Aligned_cols=21 Identities=29% Similarity=0.407 Sum_probs=13.7
Q ss_pred cccccchHHHHHHHHHHHHHHHH
Q 036418 102 NLLRLPRLQTGIGIALLFMFIIS 124 (335)
Q Consensus 102 ~~l~~P~ilI~iGv~illVsllG 124 (335)
+....|.+ .+|+++++.+.++
T Consensus 22 ~i~~lP~~--~~Gi~Lii~g~v~ 42 (49)
T PF11384_consen 22 RIQALPAI--LIGIGLIISGGVG 42 (49)
T ss_pred chhccHHH--HHhHHHHhhhhhh
Confidence 55667774 5577777766555
No 65
>PRK10209 acid-resistance membrane protein; Provisional
Probab=26.80 E-value=3e+02 Score=24.91 Aligned_cols=50 Identities=20% Similarity=0.147 Sum_probs=32.7
Q ss_pred HHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHHHHHHhhCC
Q 036418 77 ISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIISTAALFLRP 132 (335)
Q Consensus 77 l~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllGc~GA~~es 132 (335)
...+.|+..+..|+.....+..+ .-.+.+.+|+++++-|++...++...+
T Consensus 23 ~~li~Gil~ivlGi~~l~~P~~~------~~~~~~~~g~~ll~~Gi~~l~~~~~~~ 72 (190)
T PRK10209 23 AIQIIAVLLFIGGLLCLSFPFVS------GDALSTVVGILLICSGIALIVGLFANR 72 (190)
T ss_pred HHHHHHHHHHHHHHHHHHhHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence 35667788888888777754211 111234578999999999888776543
No 66
>KOG3814 consensus Signaling protein van gogh/strabismus [Signal transduction mechanisms]
Probab=26.64 E-value=3.3e+02 Score=28.52 Aligned_cols=22 Identities=32% Similarity=0.591 Sum_probs=12.1
Q ss_pred CccccccccchHHHHHHHHHHHHHHH
Q 036418 98 YDCENLLRLPRLQTGIGIALLFMFII 123 (335)
Q Consensus 98 ~~c~~~l~~P~ilI~iGv~illVsll 123 (335)
++|+..+ +.+++-.+++++|+-
T Consensus 152 ~~CeGll----ismA~kll~L~ig~w 173 (531)
T KOG3814|consen 152 TDCEGLL----ISMAFKLLILLIGIW 173 (531)
T ss_pred cccchhh----HHHHHHHHHHHHHHH
Confidence 5676642 445556666666443
No 67
>PF01654 Bac_Ubq_Cox: Bacterial Cytochrome Ubiquinol Oxidase; InterPro: IPR002585 These proteins are cytochrome bd type terminal oxidases that catalyse quinol dependent, Na+ independent oxygen uptake []. Members of this family are integral membrane proteins and contain a protoheame IX centre B558. Cytochrome bd may play an important role in microaerobic nitrogen fixation in the enteric bacterium Klebsiella pneumoniae, where it is expressed under all conditions that permit diazotrophy []. Subunit I binds a single b-haem, through ligands at His186 and Met393 (using P0ABJ9 from SWISSPROT numbering). In addition His19 is a ligand for the haem b found in subunit II (IPR003317 from INTERPRO).; GO: 0016020 membrane
Probab=26.60 E-value=1.2e+02 Score=31.35 Aligned_cols=49 Identities=8% Similarity=0.237 Sum_probs=34.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHhh---CCCccHHHHHHHHHHHHHHHHHHHHhh
Q 036418 109 LQTGIGIALLFMFIISTAALFL---RPKFPMPGFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 109 ilI~iGv~illVsllGc~GA~~---es~clL~~Y~ilm~lLil~li~~faf~ 157 (335)
+++++|.+++++++++..-..| ++|++|+.....+.+=.++...|.+.+
T Consensus 326 ~Mv~lG~l~~~~~~~~~~~~~r~~~~~r~~l~~~~~~~plp~iA~~~GW~~~ 377 (436)
T PF01654_consen 326 VMVGLGFLMLLLALLGLWLWWRGRLSSRWFLRLLVWSIPLPFIANEAGWIVT 377 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHHHHHHHhchheEe
Confidence 6789999999999999988777 456666655544444444455666654
No 68
>PRK12671 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=26.43 E-value=3.4e+02 Score=23.48 Aligned_cols=54 Identities=19% Similarity=0.112 Sum_probs=26.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHH
Q 036418 69 SLSGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFII 123 (335)
Q Consensus 69 ~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsll 123 (335)
..+-++-.+++++|...+.+|..-..+-.+--.| +.++-..-.+|+.++++|.+
T Consensus 9 ~~~~il~~~lll~G~~f~l~gaiGllR~PD~ytR-lHAatKa~TlG~~liL~g~~ 62 (120)
T PRK12671 9 LWAAILVAFFLVLGAGLTLIGTIGLVRLKSFYER-LHAPTLGTSWGAGGILIASI 62 (120)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhcCCcHHHH-hhcchhhhhhhHHHHHHHHH
Confidence 3444455566666766666665555542211112 12222223456666666654
No 69
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=25.91 E-value=1.9e+02 Score=20.28 Aligned_cols=26 Identities=19% Similarity=0.369 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 291 FVRTLESKWRKLGLFLVLMSLFLFVS 316 (335)
Q Consensus 291 vL~~lr~~W~~~~i~ni~~~i~Li~~ 316 (335)
.+..-+|.|-.++++-|++++.||.-
T Consensus 8 ai~aYEr~Wi~F~l~mi~vFi~li~y 33 (38)
T PF09125_consen 8 AIEAYERGWIAFALAMILVFIALIGY 33 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence 67778899999999988888877653
No 70
>PRK10263 DNA translocase FtsK; Provisional
Probab=25.83 E-value=3.4e+02 Score=32.42 Aligned_cols=10 Identities=20% Similarity=0.335 Sum_probs=4.2
Q ss_pred HHHHHHHHHH
Q 036418 114 GIALLFMFII 123 (335)
Q Consensus 114 Gv~illVsll 123 (335)
|++++++++.
T Consensus 118 GlLLLLLas~ 127 (1355)
T PRK10263 118 GVLALILTSC 127 (1355)
T ss_pred HHHHHHHHHH
Confidence 4444443333
No 71
>PRK11901 hypothetical protein; Reviewed
Probab=25.65 E-value=59 Score=32.63 Aligned_cols=23 Identities=30% Similarity=0.626 Sum_probs=16.9
Q ss_pred hHHHHHHHHHHHHHHHHHHHHhh
Q 036418 108 RLQTGIGIALLFMFIISTAALFL 130 (335)
Q Consensus 108 ~ilI~iGv~illVsllGc~GA~~ 130 (335)
.++||+|+++|++-++|.-.|+|
T Consensus 37 h~MiGiGilVLlLLIi~IgSALk 59 (327)
T PRK11901 37 HMMIGIGILVLLLLIIAIGSALK 59 (327)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcc
Confidence 37789998888877777555554
No 72
>PF13829 DUF4191: Domain of unknown function (DUF4191)
Probab=25.38 E-value=2.3e+02 Score=27.13 Aligned_cols=40 Identities=20% Similarity=0.175 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHHHHHHHHHHh
Q 036418 113 IGIALLFMFIISTAALFLRPKFPMPGFLLAVVPLLVMLTVGLAL 156 (335)
Q Consensus 113 iGv~illVsllGc~GA~~es~clL~~Y~ilm~lLil~li~~faf 156 (335)
+|+++..+.++-.+|-+.+ .+.|++++-+++.+++..++|
T Consensus 32 l~a~l~~~~v~v~ig~l~~----~~~~~~i~gi~~g~l~am~vl 71 (224)
T PF13829_consen 32 LGAFLGPIAVFVLIGLLFG----SWWYWLIIGILLGLLAAMIVL 71 (224)
T ss_pred HHHHHHHHHHHHHHHHHHc----cHHHHHHHHHHHHHHHHHHHH
Confidence 3566666666556666666 234444444444444333333
No 73
>COG4194 Predicted membrane protein [General function prediction only]
Probab=25.03 E-value=4.6e+02 Score=26.68 Aligned_cols=49 Identities=18% Similarity=0.226 Sum_probs=25.9
Q ss_pred hHHHHHHHHHHHHHHHH-HHHHhhCCCccHHHHHHHHHHHHHHHHHHHHh
Q 036418 108 RLQTGIGIALLFMFIIS-TAALFLRPKFPMPGFLLAVVPLLVMLTVGLAL 156 (335)
Q Consensus 108 ~ilI~iGv~illVsllG-c~GA~~es~clL~~Y~ilm~lLil~li~~faf 156 (335)
.+.+.+|.+++....+- ..--..-|.--+.+.+.++..+++....+++.
T Consensus 221 ~~~~ivg~fm~~lf~i~~~~i~~~lnp~~~~~~vi~~iili~~s~l~l~l 270 (350)
T COG4194 221 IIALIVGWFMFSLFAIISAMILLRLNPSGLITHVIIAIILIAVSTLALAL 270 (350)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCcccchhhHHHHHHHHHHHHHHHH
Confidence 35566788877665554 23334445555556665555555444333333
No 74
>PLN02518 pheophorbide a oxygenase
Probab=24.95 E-value=1.7e+02 Score=31.19 Aligned_cols=13 Identities=23% Similarity=1.086 Sum_probs=8.9
Q ss_pred cCcchhhHHHHHHH
Q 036418 283 DCQACKDGFVRTLE 296 (335)
Q Consensus 283 ~C~SCKaGvL~~lr 296 (335)
+|.||++.+ ++++
T Consensus 466 ~C~SC~~Al-k~i~ 478 (539)
T PLN02518 466 NCSSCKGAY-KAFQ 478 (539)
T ss_pred cChhHHHHH-HHHH
Confidence 799999763 4443
No 75
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=24.01 E-value=5.4e+02 Score=23.43 Aligned_cols=24 Identities=13% Similarity=0.039 Sum_probs=11.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhhheee
Q 036418 71 SGILAMISFIVSLPILASVIWLLYM 95 (335)
Q Consensus 71 l~~~Nfl~~l~Gi~ILg~GIWl~~~ 95 (335)
+.+-|.+++ .|+.-+-.|+.....
T Consensus 81 ~~ld~~L~~-~~if~~~~gi~~~f~ 104 (206)
T PF06570_consen 81 MALDNSLLF-FGIFSLLFGIMGFFS 104 (206)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHh
Confidence 344454443 345555556554443
No 76
>PRK11513 cytochrome b561; Provisional
Probab=23.96 E-value=1.8e+02 Score=26.14 Aligned_cols=33 Identities=21% Similarity=0.328 Sum_probs=24.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhcC
Q 036418 297 SKWRKLGLFLVLMSLFLFVSHLFLFLATMWELVVVKENI 335 (335)
Q Consensus 297 ~~W~~~~i~ni~~~i~Li~~~~~~~~~~~~~~~~~~~~~ 335 (335)
++++.. ..-+++++|+.|+. ++.|++++.|+|+
T Consensus 134 ~~~H~~---~a~~l~~li~lHva---aAL~H~~i~kD~~ 166 (176)
T PRK11513 134 KSWHET---LANLGYFVIGLHAA---AALAHHYFWKDNT 166 (176)
T ss_pred HHHHHH---HHHHHHHHHHHHHH---HHHHHHHHccccH
Confidence 345543 34566788999974 7899999999884
No 77
>PF13903 Claudin_2: PMP-22/EMP/MP20/Claudin tight junction
Probab=23.91 E-value=3.1e+02 Score=23.01 Aligned_cols=28 Identities=14% Similarity=0.141 Sum_probs=16.8
Q ss_pred HHHHHHHHHHHHHHH-HHHHHhhCCCccH
Q 036418 109 LQTGIGIALLFMFII-STAALFLRPKFPM 136 (335)
Q Consensus 109 ilI~iGv~illVsll-Gc~GA~~es~clL 136 (335)
.+..+|+++++++++ +.++.+++++.++
T Consensus 73 ~~~~l~~~~~~~a~~~~~~~~~~~~~~~~ 101 (172)
T PF13903_consen 73 AFLILGLLLLLFAFVFALIGFCKRSYTLY 101 (172)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhccccchh
Confidence 344556666666554 6677777776443
No 78
>PF13630 SdpI: SdpI/YhfL protein family
Probab=23.57 E-value=3e+02 Score=20.54 Aligned_cols=15 Identities=40% Similarity=0.246 Sum_probs=8.5
Q ss_pred HHHHHHHHHHHHHHH
Q 036418 110 QTGIGIALLFMFIIS 124 (335)
Q Consensus 110 lI~iGv~illVsllG 124 (335)
.+..|+++++++++.
T Consensus 34 ~~~~Gi~~~~~~~~~ 48 (76)
T PF13630_consen 34 FIIGGIVLLIIGIII 48 (76)
T ss_pred HHHHHHHHHHHHHHH
Confidence 345566666665553
No 79
>KOG4753 consensus Predicted membrane protein [Function unknown]
Probab=23.53 E-value=69 Score=27.84 Aligned_cols=11 Identities=27% Similarity=0.186 Sum_probs=6.6
Q ss_pred HHHHHHHHHHH
Q 036418 111 TGIGIALLFMF 121 (335)
Q Consensus 111 I~iGv~illVs 121 (335)
+++|+++|+=|
T Consensus 88 ~V~G~L~FiPG 98 (124)
T KOG4753|consen 88 FVLGILLFIPG 98 (124)
T ss_pred ehhhhHhcccc
Confidence 55677666543
No 80
>COG4298 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.28 E-value=87 Score=25.81 Aligned_cols=23 Identities=30% Similarity=0.359 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHHhhhee
Q 036418 72 GILAMISFIVSLPILASVIWLLY 94 (335)
Q Consensus 72 ~~~Nfl~~l~Gi~ILg~GIWl~~ 94 (335)
..||-..+.+++.++++|||.+-
T Consensus 17 i~f~waafg~s~~m~~~gi~~lP 39 (95)
T COG4298 17 IMFNWAAFGASYFMLGLGIWLLP 39 (95)
T ss_pred HhHHHHHHHHHHHHHHHHhheec
Confidence 35688889999999999999764
No 81
>PF07331 TctB: Tripartite tricarboxylate transporter TctB family; InterPro: IPR009936 This entry contains bacterial proteins of around 150 residues in length, which have 4 transmembrane domains. Some of the sequences in the entry are annotated as the TctB subunit of the tripartite tricarboxylate transport(TTT) family. However there is no direct evidence to support this annotation as characterised members of this family are not associated with the entry.
Probab=22.73 E-value=1.6e+02 Score=24.51 Aligned_cols=30 Identities=20% Similarity=0.524 Sum_probs=22.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 296 ESKWRKLGLFLVLMSLFLFVSHLFLFLATM 325 (335)
Q Consensus 296 r~~W~~~~i~ni~~~i~Li~~~~~~~~~~~ 325 (335)
+.+|+++..+.+.+++.....+.++|+.+.
T Consensus 69 ~~~~~~~~~~~~~~~~y~~~~~~lGf~~at 98 (141)
T PF07331_consen 69 RVDWKRVLLVLGLLVLYVLLLEYLGFIIAT 98 (141)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence 345778888888888887778888776553
No 82
>PHA03048 IMV membrane protein; Provisional
Probab=22.25 E-value=1.4e+02 Score=24.74 Aligned_cols=30 Identities=17% Similarity=0.528 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q 036418 297 SKWRKLGLFLVLMSLFLFVSHLFLFLATMWELV 329 (335)
Q Consensus 297 ~~W~~~~i~ni~~~i~Li~~~~~~~~~~~~~~~ 329 (335)
.-||.++++.-++.+++ -+=+|++.||.++
T Consensus 41 ~~wRalsii~FIlgivl---~lG~~ifsmy~r~ 70 (93)
T PHA03048 41 TVWRALSGIAFVLGIVM---TIGMLIYSMWGRY 70 (93)
T ss_pred hhHHHHHHHHHHHHHHH---HHHHHHHHHHhcc
Confidence 56998887765555443 3456788999865
No 83
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=22.25 E-value=39 Score=30.18 Aligned_cols=13 Identities=15% Similarity=0.207 Sum_probs=5.3
Q ss_pred HHHHHHHHHHHHH
Q 036418 112 GIGIALLFMFIIS 124 (335)
Q Consensus 112 ~iGv~illVsllG 124 (335)
++|++++++.+++
T Consensus 81 ivgvi~~Vi~Iv~ 93 (179)
T PF13908_consen 81 IVGVICGVIAIVV 93 (179)
T ss_pred eeehhhHHHHHHH
Confidence 3444444433333
No 84
>PHA01514 O-antigen conversion protein C
Probab=22.03 E-value=3.4e+02 Score=28.83 Aligned_cols=35 Identities=17% Similarity=0.263 Sum_probs=23.6
Q ss_pred ccchHHHHHHHHHHHHHHHHHHHHhhCCCccHHHHH
Q 036418 105 RLPRLQTGIGIALLFMFIISTAALFLRPKFPMPGFL 140 (335)
Q Consensus 105 ~~P~ilI~iGv~illVsllGc~GA~~es~clL~~Y~ 140 (335)
..|.++++.|.+++.++..=+. |+++.++....|+
T Consensus 318 ~~PRvligfg~~m~~~~~~~~~-a~~~~~~~~~~~~ 352 (485)
T PHA01514 318 YAPRVLIGMGGFMFFCCLCVFY-AFEDKQLISRIYF 352 (485)
T ss_pred ccceeeeehHHHHHHHHHHHHH-HcccccchhhHHH
Confidence 4566788899888888777444 6666665555554
No 85
>PF10003 DUF2244: Integral membrane protein (DUF2244); InterPro: IPR019253 This entry consists of various bacterial putative membrane proteins with no known function.
Probab=21.77 E-value=1.3e+02 Score=26.02 Aligned_cols=36 Identities=25% Similarity=0.398 Sum_probs=25.6
Q ss_pred ccchhhhHHHHHHHHHHHHHHHHHHHHHHHHHhhhe
Q 036418 58 PALSINALRAKSLSGILAMISFIVSLPILASVIWLL 93 (335)
Q Consensus 58 ~~~~~~~~~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~ 93 (335)
|-=|...+..+.+++++-++.++.+++....|.|..
T Consensus 3 PnrSLs~~g~~~~~~~~~~~~~~~a~~f~~~GaW~V 38 (140)
T PF10003_consen 3 PNRSLSPRGFLIFIAILAAVSLIIAIAFLLMGAWPV 38 (140)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHHHHHHHHhchHHH
Confidence 444566777788888888887777777777776643
No 86
>PF06341 DUF1056: Protein of unknown function (DUF1056); InterPro: IPR009406 This entry is represented by Bacteriophage bIL286, Orf42. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several putative head-tail joining bacteriophage proteins.
Probab=21.71 E-value=3.3e+02 Score=21.16 Aligned_cols=48 Identities=23% Similarity=0.296 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhheeeccCccccccccchHHHHHHHHHHHHHHHH
Q 036418 66 RAKSLSGILAMISFIVSLPILASVIWLLYMRDYDCENLLRLPRLQTGIGIALLFMFIIS 124 (335)
Q Consensus 66 ~vK~ll~~~Nfl~~l~Gi~ILg~GIWl~~~~~~~c~~~l~~P~ilI~iGv~illVsllG 124 (335)
-.|.+=-++-.+.++++...+.++.++.... + -.+++|+.++++|++.
T Consensus 6 ~fk~iW~~~DIi~Fila~i~i~it~F~~n~~---------~--g~i~i~I~l~l~G~is 53 (63)
T PF06341_consen 6 FFKTIWKYFDIILFILAMIFINITAFLINQI---------A--GLISIGITLFLAGLIS 53 (63)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---------H--HHHHHHHHHHHHHHHH
Confidence 4566667788889999999999998776531 1 2356788888877664
No 87
>PF12805 FUSC-like: FUSC-like inner membrane protein yccS
Probab=21.69 E-value=2.8e+02 Score=26.46 Aligned_cols=15 Identities=7% Similarity=0.290 Sum_probs=7.0
Q ss_pred HHHHHHHHHHHHHHH
Q 036418 113 IGIALLFMFIISTAA 127 (335)
Q Consensus 113 iGv~illVsllGc~G 127 (335)
++++.|+.+++|..|
T Consensus 30 ~~~~~F~~~ml~~~G 44 (284)
T PF12805_consen 30 LALLTFFFGMLGVYG 44 (284)
T ss_pred HHHHHHHHHHHHHHh
Confidence 344445555555444
No 88
>PF08006 DUF1700: Protein of unknown function (DUF1700); InterPro: IPR012963 This family contains many hypothetical bacterial proteins and two putative membrane proteins (Q6GFD0 from SWISSPROT and Q6G806 from SWISSPROT).
Probab=21.35 E-value=2.4e+02 Score=24.98 Aligned_cols=15 Identities=33% Similarity=0.432 Sum_probs=6.5
Q ss_pred cCCCCCCCCCCCccc
Q 036418 32 ALPAPAPKAKNIPEE 46 (335)
Q Consensus 32 ~~~~~~~~~~~~~~~ 46 (335)
.|-.|.--+|++-++
T Consensus 49 ~LG~P~~iA~~i~~~ 63 (181)
T PF08006_consen 49 ELGSPKEIAREILAE 63 (181)
T ss_pred HcCCHHHHHHHHHHh
Confidence 344444444444443
No 89
>COG1138 CcmF Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]
Probab=21.14 E-value=1.6e+02 Score=32.27 Aligned_cols=43 Identities=14% Similarity=0.173 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHhhCCCccHH-----HHHHHHHHHHHHHHHHHHhh
Q 036418 115 IALLFMFIISTAALFLRPKFPMP-----GFLLAVVPLLVMLTVGLALL 157 (335)
Q Consensus 115 v~illVsllGc~GA~~es~clL~-----~Y~ilm~lLil~li~~faf~ 157 (335)
.+-++.+++...|+.++++-++. .|....++++.+.+.+++|.
T Consensus 15 ~~all~~~~~l~g~~~~~~~~~~~a~~~~~~~f~~~~~af~~L~~afv 62 (648)
T COG1138 15 ALALLLSLVPLFGALRRDPALMALARPTAYAAFLLLLLAFALLVYAFV 62 (648)
T ss_pred HHHHHHHHHHHHhccccCHHHHhhchhHHHHHHHHHHHHHHHHHHHHH
Confidence 34456677788889999988876 56545555555556677775
No 90
>PRK12586 putative monovalent cation/H+ antiporter subunit G; Reviewed
Probab=21.10 E-value=6e+02 Score=22.67 Aligned_cols=25 Identities=12% Similarity=0.014 Sum_probs=13.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhhheee
Q 036418 71 SGILAMISFIVSLPILASVIWLLYM 95 (335)
Q Consensus 71 l~~~Nfl~~l~Gi~ILg~GIWl~~~ 95 (335)
+-++-.+++++|..++.+|..-...
T Consensus 8 ~~il~~ill~lG~~f~ligaIGllR 32 (145)
T PRK12586 8 FSLIAAIMILLGSIIALISAIGIVK 32 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3445556666676666655544443
No 91
>PF09925 DUF2157: Predicted membrane protein (DUF2157); InterPro: IPR018677 This family of various hypothetical prokaryotic proteins has no known function.
Probab=20.74 E-value=5.4e+02 Score=22.01 Aligned_cols=22 Identities=27% Similarity=0.227 Sum_probs=12.5
Q ss_pred HHHHHHHHHHHHHHHHhhheee
Q 036418 74 LAMISFIVSLPILASVIWLLYM 95 (335)
Q Consensus 74 ~Nfl~~l~Gi~ILg~GIWl~~~ 95 (335)
+.-++..+|..+++.|+-..+.
T Consensus 32 ~~~~l~~lGall~~~gii~fvA 53 (145)
T PF09925_consen 32 LARILLYLGALLLGLGIILFVA 53 (145)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 3445556666666666655443
No 92
>PF06422 PDR_CDR: CDR ABC transporter; InterPro: IPR010929 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems. ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). In yeast, the PDR and CDR ABC transporters display extensive sequence homology, and confer resistance to several anti-fungal compounds by actively transporting their substrates out of the cell. These transporters have two homologous halves, each with an N-terminal intracellular hydrophilic region that contains an ATP-binding site, followed by a C-terminal membrane-associated region containing six transmembrane segments []. This entry represents a domain of the PDR/CDR ABC transporter comprising extracellular loop 3, transmembrane segment 6 and a linker region.; GO: 0005524 ATP binding, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0006810 transport, 0016021 integral to membrane
Probab=20.66 E-value=1.2e+02 Score=24.98 Aligned_cols=22 Identities=18% Similarity=0.804 Sum_probs=14.5
Q ss_pred HHHHHHHHHHHHHHHHHHHHHH
Q 036418 295 LESKWRKLGLFLVLMSLFLFVS 316 (335)
Q Consensus 295 lr~~W~~~~i~ni~~~i~Li~~ 316 (335)
..+.||.++|+...+++++++.
T Consensus 45 ~sh~WRN~GIli~f~i~f~~~~ 66 (103)
T PF06422_consen 45 YSHRWRNFGILIAFWIFFIVLT 66 (103)
T ss_pred ccchhhhHHHHHHHHHHHHHHH
Confidence 4588998887766555554443
No 93
>PF08172 CASP_C: CASP C terminal; InterPro: IPR012955 This domain is the C-terminal region of the CASP family of proteins. These are Golgi membrane proteins which are thought to have a role in vesicle transport [].; GO: 0006891 intra-Golgi vesicle-mediated transport, 0030173 integral to Golgi membrane
Probab=20.47 E-value=1.1e+02 Score=29.29 Aligned_cols=21 Identities=19% Similarity=0.420 Sum_probs=17.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHH
Q 036418 308 LMSLFLFVSHLFLFLATMWEL 328 (335)
Q Consensus 308 ~~~i~Li~~~~~~~~~~~~~~ 328 (335)
++++.+++.|+++|++.+|-.
T Consensus 221 ~f~~Y~l~LH~lvf~~l~~~~ 241 (248)
T PF08172_consen 221 LFFFYCLGLHLLVFFVLYYMS 241 (248)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 467789999999999999843
No 94
>PF05640 NKAIN: Na,K-Atpase Interacting protein; InterPro: IPR008516 NKAIN (Na,K-Atpase INteracting) proteins are a family of evolutionary conserved transmembrane proteins that localise to neurons, that are critical for neuronal function, and that interact with the beta subunits, beta1 in vertebrates and beta in Drosophila, of Na,K-ATPase. NKAINs have highly conserved trans-membrane domains but otherwise no other characterised domains. NKAINs may function as subunits of pore or channel structures in neurons or they may affect the function of other membrane proteins. They are likely to function within the membrane bilayer [].
Probab=20.19 E-value=3.6e+02 Score=25.40 Aligned_cols=34 Identities=3% Similarity=-0.055 Sum_probs=24.3
Q ss_pred HHHHHHHHHHHHHHHhhCCCccHHHHHHHHHHHH
Q 036418 114 GIALLFMFIISTAALFLRPKFPMPGFLLAVVPLL 147 (335)
Q Consensus 114 Gv~illVsllGc~GA~~es~clL~~Y~ilm~lLi 147 (335)
-.+-+++-++|+.|+..-++..+..|.+-.++=+
T Consensus 40 NF~hIi~vIlGlFG~~QyR~ryi~~Y~vW~~~Wv 73 (200)
T PF05640_consen 40 NFLHIIFVILGLFGAIQYRPRYIIVYAVWTALWV 73 (200)
T ss_pred HHHHHHHHHHHHhhheeecchHHHHHHHHHHHHH
Confidence 4444455577888899999999999985544433
Done!