Query 036537
Match_columns 212
No_of_seqs 130 out of 876
Neff 6.0
Searched_HMMs 46136
Date Fri Mar 29 03:02:16 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036537.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036537hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06899 lectin_legume_LecRK_Ar 100.0 5E-36 1.1E-40 258.7 15.5 133 9-148 96-235 (236)
2 PF00139 Lectin_legB: Legume l 100.0 1E-34 2.3E-39 249.9 11.5 134 9-146 97-236 (236)
3 cd01951 lectin_L-type legume l 99.9 4.1E-27 8.9E-32 200.2 13.9 127 13-147 94-223 (223)
4 cd07308 lectin_leg-like legume 99.0 1.9E-08 4.2E-13 85.5 13.6 117 24-146 98-216 (218)
5 cd06902 lectin_ERGIC-53_ERGL E 98.7 5.3E-07 1.2E-11 77.9 13.1 119 25-147 101-223 (225)
6 cd06901 lectin_VIP36_VIPL VIP3 97.5 0.0032 7E-08 55.3 14.1 118 26-151 101-226 (248)
7 cd06903 lectin_EMP46_EMP47 EMP 97.4 0.0036 7.9E-08 53.8 12.3 63 76-147 149-213 (215)
8 PF03388 Lectin_leg-like: Legu 97.3 0.0029 6.3E-08 54.6 10.2 128 9-144 75-224 (229)
9 KOG3838 Mannose lectin ERGIC-5 96.6 0.031 6.7E-07 52.3 11.7 112 27-145 135-252 (497)
10 KOG3839 Lectin VIP36, involved 93.5 0.066 1.4E-06 49.0 3.1 60 81-145 212-272 (351)
11 cd06900 lectin_VcfQ VcfQ bacte 91.6 5.9 0.00013 35.1 12.6 29 117-145 225-253 (255)
12 PF04478 Mid2: Mid2 like cell 85.1 0.54 1.2E-05 38.7 1.8 29 168-196 48-79 (154)
13 PF15065 NCU-G1: Lysosomal tra 78.7 3.6 7.8E-05 38.1 4.9 28 123-150 281-308 (350)
14 PF08693 SKG6: Transmembrane a 78.0 0.63 1.4E-05 29.9 -0.2 26 170-195 13-39 (40)
15 PF01102 Glycophorin_A: Glycop 69.2 0.4 8.6E-06 38.0 -3.4 24 170-193 65-89 (122)
16 PF15102 TMEM154: TMEM154 prot 64.9 7.4 0.00016 31.8 3.1 28 170-198 61-88 (146)
17 PF01034 Syndecan: Syndecan do 60.2 2.9 6.2E-05 29.6 -0.0 9 170-178 10-18 (64)
18 PTZ00382 Variant-specific surf 58.9 9.7 0.00021 28.7 2.7 9 170-178 67-75 (96)
19 PF06024 DUF912: Nucleopolyhed 54.7 9.4 0.0002 28.9 2.0 27 170-196 64-90 (101)
20 PF05454 DAG1: Dystroglycan (D 54.0 4.2 9.2E-05 36.7 0.0 30 169-198 148-177 (290)
21 PF14610 DUF4448: Protein of u 51.2 14 0.0003 30.7 2.7 29 169-197 159-188 (189)
22 PTZ00382 Variant-specific surf 47.9 6.2 0.00013 29.8 0.0 22 169-191 70-91 (96)
23 PF07213 DAP10: DAP10 membrane 45.0 5.1 0.00011 29.5 -0.8 33 168-200 33-67 (79)
24 PF01034 Syndecan: Syndecan do 44.2 7.9 0.00017 27.4 0.1 9 170-178 14-22 (64)
25 PF13908 Shisa: Wnt and FGF in 37.5 24 0.00052 28.9 2.0 12 170-181 80-91 (179)
26 PF12273 RCR: Chitin synthesis 37.0 7.9 0.00017 30.3 -0.9 10 193-202 25-34 (130)
27 PF11770 GAPT: GRB2-binding ad 35.3 17 0.00037 30.0 0.7 24 170-193 12-35 (158)
28 PF02480 Herpes_gE: Alphaherpe 33.1 14 0.00031 35.1 0.0 6 140-145 294-299 (439)
29 PF11857 DUF3377: Domain of un 31.1 56 0.0012 23.8 2.8 35 171-205 31-65 (74)
30 smart00282 LamG Laminin G doma 29.9 2.4E+02 0.0051 21.0 7.5 26 73-100 57-82 (135)
31 PF00054 Laminin_G_1: Laminin 29.7 2.2E+02 0.0048 21.6 6.3 23 74-96 49-71 (131)
32 cd00110 LamG Laminin G domain; 27.6 2.6E+02 0.0057 20.8 7.4 25 74-100 76-100 (151)
33 smart00159 PTX Pentraxin / C-r 26.9 81 0.0018 26.4 3.6 28 73-100 85-112 (206)
34 PF06697 DUF1191: Protein of u 26.1 3.1E+02 0.0068 24.7 7.2 23 170-192 215-238 (278)
35 PF12248 Methyltransf_FA: Farn 25.9 2.8E+02 0.006 20.5 6.1 46 75-128 49-94 (102)
36 PF14851 FAM176: FAM176 family 25.3 30 0.00066 28.4 0.6 24 168-191 24-47 (153)
37 TIGR01478 STEVOR variant surfa 24.4 12 0.00027 33.7 -1.9 21 183-203 273-293 (295)
38 PF01299 Lamp: Lysosome-associ 24.3 40 0.00086 30.1 1.3 27 170-196 271-299 (306)
39 KOG3514 Neurexin III-alpha [Si 23.7 3.8E+02 0.0082 29.2 8.1 49 72-126 914-963 (1591)
40 PF07472 PA-IIL: Fucose-bindin 23.0 3.7E+02 0.0079 20.9 6.6 53 87-144 50-106 (107)
41 smart00560 LamGL LamG-like jel 22.8 1.1E+02 0.0025 23.4 3.4 23 78-100 61-83 (133)
42 PF10873 DUF2668: Protein of u 22.6 34 0.00075 28.0 0.5 24 171-194 63-90 (155)
43 PTZ00370 STEVOR; Provisional 21.1 12 0.00027 33.8 -2.6 21 183-203 269-289 (296)
44 PF03302 VSP: Giardia variant- 20.6 46 0.001 31.1 1.0 18 168-185 366-383 (397)
45 cd00152 PTX Pentraxins are pla 20.4 1.2E+02 0.0027 25.0 3.5 26 75-100 87-112 (201)
46 PHA03099 epidermal growth fact 20.2 58 0.0012 26.3 1.3 30 171-203 106-135 (139)
No 1
>cd06899 lectin_legume_LecRK_Arcelin_ConA legume lectins, lectin-like receptor kinases, arcelin, concanavalinA, and alpha-amylase inhibitor. This alignment model includes the legume lectins (also known as agglutinins), the arcelin (also known as phytohemagglutinin-L) family of lectin-like defense proteins, the LecRK family of lectin-like receptor kinases, concanavalinA (ConA), and an alpha-amylase inhibitor. Arcelin is a major seed glycoprotein discovered in kidney beans (Phaseolus vulgaris) that has insecticidal properties and protects the seeds from predation by larvae of various bruchids. Arcelin is devoid of monosaccharide binding properties and lacks a key metal-binding loop that is present in other members of this family. Phytohaemagglutinin (PHA) is a lectin found in plants, especially beans, that affects cell metabolism by inducing mitosis and by altering the permeability of the cell membrane to various proteins. PHA agglutinates most mammalian red blood cell types by bindin
Probab=100.00 E-value=5e-36 Score=258.74 Aligned_cols=133 Identities=39% Similarity=0.671 Sum_probs=117.1
Q ss_pred CCCCCeeeeeccCC---CCccEEEEEEeCCCC-CC-CCCCCeeEEecCCCCccccccccccccCCCCCccccCCCCcEEE
Q 036537 9 RLDGCYTASLCLHG---VKVSLLAVEMDTYKN-PF-DPDTNHIGLDTTSAESVATKCMFGWKKCLSSAGINLKSGRPIKV 83 (212)
Q Consensus 9 ~~~g~yLGL~~~~~---~~~~~vAVEFDT~~n-~~-Dp~~nHVgIdvns~~S~~t~~~~~y~~~~~~~~~~l~~G~~~~v 83 (212)
++.|+||||++.++ ..++.+||||||++| ++ ||+.||||||+|++.|..+. .|. ...+.|.+|+.++|
T Consensus 96 ~~~G~~lG~~~~~~~~~~~~~~vAVEFDT~~n~~~~D~~~nHigIdvn~~~S~~~~---~~~----~~~~~l~~g~~~~v 168 (236)
T cd06899 96 ASSGGYLGLFNSSNNGNSSNHIVAVEFDTFQNPEFGDPDDNHVGIDVNSLVSVKAG---YWD----DDGGKLKSGKPMQA 168 (236)
T ss_pred CCCcceeeeecCCCCCCcccceEEEEeecccCcccCCCCCCeEEEEcCCcccceee---ccc----cccccccCCCeEEE
Confidence 57899999998764 467899999999999 66 99999999999998777654 111 11345789999999
Q ss_pred EEEEeCCccEEEEEEEEC--CCCcceeeeeeecCCCCCCCeEEEEEEeecCCcccceEEEeEEEEec
Q 036537 84 QIYYDGLTKMLYVYMAYS--GDQLQKSMEKPIIMSETVPSSVYVGFTAATGELSESHQLLDWTFTTF 148 (212)
Q Consensus 84 wI~Yd~~s~~L~V~l~~~--~kp~~plLs~~vdLs~~l~~~v~VGFSASTG~~~q~h~I~sWsF~s~ 148 (212)
||+||+.+++|+|+|+.. .+|..|+|++++||+.+|+++||||||||||...|.|+|++|+|+++
T Consensus 169 ~I~Y~~~~~~L~V~l~~~~~~~~~~~~ls~~vdL~~~l~~~~~vGFSasTG~~~~~h~i~sWsF~s~ 235 (236)
T cd06899 169 WIDYDSSSKRLSVTLAYSGVAKPKKPLLSYPVDLSKVLPEEVYVGFSASTGLLTELHYILSWSFSSN 235 (236)
T ss_pred EEEEcCCCCEEEEEEEeCCCCCCcCCEEEEeccHHHhCCCceEEEEEeEcCCCcceEEEEEEEEEcC
Confidence 999999999999999984 37999999999999999999999999999999999999999999986
No 2
>PF00139 Lectin_legB: Legume lectin domain; InterPro: IPR001220 Legume lectins are one of the largest lectin families with more than 70 lectins reported. Leguminous plant lectins resemble each other in their physicochemical properties although they differ in their carbohydrate specificities. They consist of two or four subunits with relative molecular mass of 30 kDa and each subunit has one carbohydrate-binding site. The interaction with sugars requires tightly bound calcium and manganese ions. The structural similarities of these lectins are reported by the primary structural analyses and X-ray crystallographic studies. X-ray studies have shown that the folding of the polypeptide chains in the region of the carbohydrate-binding sites is also similar, despite differences in the primary sequences. The carbohydrate-binding sites of these lectins consist of two conserved amino acids on beta pleated sheets. One of these loops contains transition metals, calcium and manganese, which keep the amino acid residues of the sugar-binding site at the required positions. Amino acid sequences of this loop play an important role in the carbohydrate-binding specificities of these lectins. These lectins bind either glucose/mannose or galactose. The exact function of legume lectins is not known but they may be involved in the attachment of nitrogen-fixing bacteria to legumes and in the protection against pathogens. Some legume lectins are proteolytically processed to produce two chains, beta (which corresponds to the N-terminal) and alpha (C-terminal) (IPR000985 from INTERPRO). The lectin concanavalin A (conA) from jack bean is exceptional in that the two chains are transposed and ligated (by formation of a new peptide bond). The N terminus of mature conA thus corresponds to that of the alpha chain and the C terminus to the beta chain.; GO: 0005488 binding; PDB: 1VLN_B 2GDF_C 2JE9_C 2JEC_C 1DGL_B 2P37_B 2CWM_A 2P34_D 2OW4_A 3IPV_B ....
Probab=100.00 E-value=1e-34 Score=249.86 Aligned_cols=134 Identities=36% Similarity=0.555 Sum_probs=114.7
Q ss_pred CCCCCeeeeeccCC---CCccEEEEEEeCCCC-CC-CCCCCeeEEecCCCCccccccccccccCCCCCccccCCCCcEEE
Q 036537 9 RLDGCYTASLCLHG---VKVSLLAVEMDTYKN-PF-DPDTNHIGLDTTSAESVATKCMFGWKKCLSSAGINLKSGRPIKV 83 (212)
Q Consensus 9 ~~~g~yLGL~~~~~---~~~~~vAVEFDT~~n-~~-Dp~~nHVgIdvns~~S~~t~~~~~y~~~~~~~~~~l~~G~~~~v 83 (212)
++.|++|||++... ..++++||||||++| ++ ||+.|||||++|++.+..+.+. .+.. . ...++.+|+.++|
T Consensus 97 ~~~g~~lG~~~~~~~~~~~~~~vAVEFDT~~N~~~~d~~~nHIgI~~n~~~s~~~~~~-~~~~--~-~~~~l~~g~~~~v 172 (236)
T PF00139_consen 97 GSSGGYLGLFNSSTDGNGINNSVAVEFDTYKNPEYNDPDDNHIGIDVNSVVSNKTASA-GYYS--S-PSFSLSDGKWHTV 172 (236)
T ss_dssp TSSGGGTTTSSSSSTTGGGGCEEEEEEETSTCGGGTTTSSSEEEEEESSSSESEEEE-----E--E-EEHHHGTTSEEEE
T ss_pred CCCCCccCccccccCCCccCcEEEEEEeeeecccccccCCCEEEEECCCCcccccccc-cccc--c-ccccccCCcEEEE
Confidence 46899999998753 267899999999999 66 9999999999999998877422 2111 1 2567899999999
Q ss_pred EEEEeCCccEEEEEEEEC-CCCcceeeeeeecCCCCCCCeEEEEEEeecCCcccceEEEeEEEE
Q 036537 84 QIYYDGLTKMLYVYMAYS-GDQLQKSMEKPIIMSETVPSSVYVGFTAATGELSESHQLLDWTFT 146 (212)
Q Consensus 84 wI~Yd~~s~~L~V~l~~~-~kp~~plLs~~vdLs~~l~~~v~VGFSASTG~~~q~h~I~sWsF~ 146 (212)
||+||+.+++|+|+++.. .||..|+|++.+||+++|+++||||||||||...|.|.|++|+|+
T Consensus 173 ~I~Yd~~~~~L~V~l~~~~~~~~~~~l~~~vdL~~~l~~~v~vGFsasTG~~~~~h~I~sW~F~ 236 (236)
T PF00139_consen 173 WIDYDASTKRLSVYLDDNSSKPSSPVLSVNVDLSAVLPEQVYVGFSASTGGSYQTHDILSWSFS 236 (236)
T ss_dssp EEEEETTTTEEEEEEEETTTTSEEEEEEEE--HHHHSCSEEEEEEEEEESSSSEEEEEEEEEEE
T ss_pred EEEEcCCccEEEEEEecccCCCcceeEEEEEchHHhcCCCcEEEEEeecCCCcceEEEEEEEeC
Confidence 999999999999999996 699999999999999999999999999999999999999999996
No 3
>cd01951 lectin_L-type legume lectins. The L-type (legume-type) lectins are a highly diverse family of carbohydrate binding proteins that generally display no enzymatic activity toward the sugars they bind. This family includes arcelin, concanavalinA, the lectin-like receptor kinases, the ERGIC-53/VIP36/EMP46 type1 transmembrane proteins, and an alpha-amylase inhibitor. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat six-stranded beta-sheet referred to as the "back face". This domain homodimerizes so that adjacent back sheets form a contiguous 12-stranded sheet and homotetramers occur by a back-to-back association of these homodimers. Though L-type lectins exhibit both sequence and structural similarity to one another, their carbohydrate binding specificities differ widely.
Probab=99.95 E-value=4.1e-27 Score=200.22 Aligned_cols=127 Identities=31% Similarity=0.439 Sum_probs=102.1
Q ss_pred CeeeeeccCCCCccEEEEEEeCCCC-CC-CCCCCeeEEecCCCCccc-cccccccccCCCCCccccCCCCcEEEEEEEeC
Q 036537 13 CYTASLCLHGVKVSLLAVEMDTYKN-PF-DPDTNHIGLDTTSAESVA-TKCMFGWKKCLSSAGINLKSGRPIKVQIYYDG 89 (212)
Q Consensus 13 ~yLGL~~~~~~~~~~vAVEFDT~~n-~~-Dp~~nHVgIdvns~~S~~-t~~~~~y~~~~~~~~~~l~~G~~~~vwI~Yd~ 89 (212)
++||.- ...+.+||||||++| ++ ||+.|||||++|+..+.. ......+. .+ +....+|+.++|||+|++
T Consensus 94 ~~lG~~----~~~~~~aVefDT~~N~~~~dp~~~higi~~n~~~~~~~~~~~~~~~---~~-~~~~~~g~~~~v~I~Y~~ 165 (223)
T cd01951 94 GGLGYG----GIGNSVAVEFDTYKNDDNNDPNGNHISIDVNGNGNNTALATSLGSA---SL-PNGTGLGNEHTVRITYDP 165 (223)
T ss_pred CccCcc----ccCCeEEEEEeccccCCCCCCCCCEEEEEcCCCCCCccccccccee---eC-CCccCCCCEEEEEEEEeC
Confidence 677752 346799999999999 54 999999999999987541 00001111 11 122223899999999999
Q ss_pred CccEEEEEEEECCCCcceeeeeeecCCCCCCCeEEEEEEeecCCcccceEEEeEEEEe
Q 036537 90 LTKMLYVYMAYSGDQLQKSMEKPIIMSETVPSSVYVGFTAATGELSESHQLLDWTFTT 147 (212)
Q Consensus 90 ~s~~L~V~l~~~~kp~~plLs~~vdLs~~l~~~v~VGFSASTG~~~q~h~I~sWsF~s 147 (212)
.+++|+|+|.....|..|+++.++||+..++++||||||||||...|.|+|++|+|++
T Consensus 166 ~~~~L~v~l~~~~~~~~~~l~~~~~l~~~~~~~~yvGFTAsTG~~~~~h~V~~wsf~~ 223 (223)
T cd01951 166 TTNTLTVYLDNGSTLTSLDITIPVDLIQLGPTKAYFGFTASTGGLTNLHDILNWSFTS 223 (223)
T ss_pred CCCEEEEEECCCCccccccEEEeeeecccCCCcEEEEEEcccCCCcceeEEEEEEecC
Confidence 9999999998755578899999999999999999999999999999999999999963
No 4
>cd07308 lectin_leg-like legume-like lectins: ERGIC-53, ERGL, VIP36, VIPL, EMP46, and EMP47. The legume-like (leg-like) lectins are eukaryotic intracellular sugar transport proteins with a carbohydrate recognition domain similar to that of the legume lectins. This domain binds high-mannose-type oligosaccharides for transport from the endoplasmic reticulum to the Golgi complex. These leg-like lectins include ERGIC-53, ERGL, VIP36, VIPL, EMP46, EMP47, and the UIP5 (ULP1-interacting protein 5) precursor protein. Leg-like lectins have different intracellular distributions and dynamics in the endoplasmic reticulum-Golgi system of the secretory pathway and interact with N-glycans of glycoproteins in a calcium-dependent manner, suggesting a role in glycoprotein sorting and trafficking. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat six-stranded beta-sheet referred to as the "ba
Probab=98.95 E-value=1.9e-08 Score=85.52 Aligned_cols=117 Identities=25% Similarity=0.279 Sum_probs=70.8
Q ss_pred CccEEEEEEeCCCCCCCCCCCeeEEecCC-CCccccccccccccCCCCCccccCC-CCcEEEEEEEeCCccEEEEEEEEC
Q 036537 24 KVSLLAVEMDTYKNPFDPDTNHIGLDTTS-AESVATKCMFGWKKCLSSAGINLKS-GRPIKVQIYYDGLTKMLYVYMAYS 101 (212)
Q Consensus 24 ~~~~vAVEFDT~~n~~Dp~~nHVgIdvns-~~S~~t~~~~~y~~~~~~~~~~l~~-G~~~~vwI~Yd~~s~~L~V~l~~~ 101 (212)
..+-+||||||++|. +-..++|.+-+|- ..+............+.+ .+...+ +++..++|.|+ .+.|.|.+...
T Consensus 98 ~~~Glai~fdt~~n~-~~~~p~i~~~~Ndg~~~~~~~~d~~~~~~~~c-~~~~~~~~~~~~~~I~y~--~~~l~v~i~~~ 173 (218)
T cd07308 98 KFKGLAIFFDTYDND-GKGFPSISVFLNDGTKSYDYETDGEKLELASC-SLKFRNSNAPTTLRISYL--NNTLKVDITYS 173 (218)
T ss_pred CCCEEEEEEEcCCCC-CCCCCeEEEEEeCCCceecccCCCccccccce-eEecccCCCCeEEEEEEE--CCEEEEEEeCC
Confidence 456899999999884 3344566665542 222110000000000011 222222 67999999999 57899988752
Q ss_pred CCCcceeeeeeecCCCCCCCeEEEEEEeecCCcccceEEEeEEEE
Q 036537 102 GDQLQKSMEKPIIMSETVPSSVYVGFTAATGELSESHQLLDWTFT 146 (212)
Q Consensus 102 ~kp~~plLs~~vdLs~~l~~~v~VGFSASTG~~~q~h~I~sWsF~ 146 (212)
.+....+...++. ..+++..|+||||+||...+.|+|++|.+.
T Consensus 174 -~~~~~~~c~~~~~-~~l~~~~y~G~sA~tg~~~d~~dIls~~~~ 216 (218)
T cd07308 174 -EGNNWKECFTVED-VILPSQGYFGFSAQTGDLSDNHDILSVHTY 216 (218)
T ss_pred -CCCCccEEEEcCC-cccCCCCEEEEEeccCCCcCcEEEEEEEee
Confidence 1112222222222 146788999999999999999999999874
No 5
>cd06902 lectin_ERGIC-53_ERGL ERGIC-53 and ERGL type 1 transmembrane proteins, N-terminal lectin domain. ERGIC-53 and ERGL, N-terminal carbohydrate recognition domain. ERGIC-53 and ERGL are eukaryotic mannose-binding type 1 transmembrane proteins of the early secretory pathway that transport newly synthesized glycoproteins from the endoplasmic reticulum (ER) to the ER-Golgi intermediate compartment (ERGIC). ERGIC-53 and ERGL have an N-terminal lectin-like carbohydrate recognition domain (represented by this alignment model) as well as a C-terminal transmembrane domain. ERGIC-53 functions as a 'cargo receptor' to facilitate the export of glycoproteins with different characteristics from the ER, while the ERGIC-53-like protein (ERGL) which may act as a regulator of ERGIC-53. In mammals, ERGIC-53 forms a complex with MCFD2 (multi-coagulation factor deficiency 2) which then recruits blood coagulation factors V and VIII. Mutations in either MCFD2 or ERGIC-53 cause a mild form of inherite
Probab=98.66 E-value=5.3e-07 Score=77.89 Aligned_cols=119 Identities=18% Similarity=0.233 Sum_probs=71.8
Q ss_pred ccEEEEEEeCCCCCCCCCCCeeEEecCC-CCcccccccccccc-CCCCCccccCC-CCcEEEEEEEeCCccEEEEEEEEC
Q 036537 25 VSLLAVEMDTYKNPFDPDTNHIGLDTTS-AESVATKCMFGWKK-CLSSAGINLKS-GRPIKVQIYYDGLTKMLYVYMAYS 101 (212)
Q Consensus 25 ~~~vAVEFDT~~n~~Dp~~nHVgIdvns-~~S~~t~~~~~y~~-~~~~~~~~l~~-G~~~~vwI~Yd~~s~~L~V~l~~~ 101 (212)
-.=+||.|||+.|.-..+.+.|.+-.|- ....... ...... -+.+ ....++ ..+..++|.|.. ..|.|.++..
T Consensus 101 f~Gl~I~~Dt~~n~~~~~~p~i~~~~NDGt~~yd~~-~D~~~~~~~~C-~~~~rn~~~p~~~rI~Y~~--~~l~V~~d~~ 176 (225)
T cd06902 101 WNGVGIFFDSFDNDGKKNNPAILVVGNDGTKSYDHQ-NDGLTQALGSC-LRDFRNKPYPVRAKITYYQ--NVLTVSINNG 176 (225)
T ss_pred ccEEEEEEECCCCCCCCCCcEEEEEECCCCeecccc-CCCcccccceE-EEeccCCCCCeEEEEEEEC--CeEEEEEeCC
Confidence 3468999999987323334567665542 2211110 000000 0011 122222 467899999999 4589888753
Q ss_pred CCCcceeeeeeecCCC-CCCCeEEEEEEeecCCcccceEEEeEEEEe
Q 036537 102 GDQLQKSMEKPIIMSE-TVPSSVYVGFTAATGELSESHQLLDWTFTT 147 (212)
Q Consensus 102 ~kp~~plLs~~vdLs~-~l~~~v~VGFSASTG~~~q~h~I~sWsF~s 147 (212)
.++.......-.++.+ .||+..|+||||+||...+.|+|++|++.+
T Consensus 177 ~~~~~~~~~~Cf~~~~v~LP~~~yfGiSA~Tg~l~d~hDIls~~~~s 223 (225)
T cd06902 177 FTPNKDDYELCTRVENMVLPPNGYFGVSAATGGLADDHDVLSFLTFS 223 (225)
T ss_pred cCCCCCcccEEEecCCeeCCCCCEEEEEecCCCCCCcEeEEEEEEec
Confidence 3333222333334444 477889999999999999999999999864
No 6
>cd06901 lectin_VIP36_VIPL VIP36 and VIPL type 1 transmembrane proteins, lectin domain. The vesicular integral protein of 36 kDa (VIP36) is a type 1 transmembrane protein of the mammalian early secretory pathway that acts as a cargo receptor transporting high mannose type glycoproteins between the Golgi and the endoplasmic reticulum (ER). Lectins of the early secretory pathway are involved in the selective transport of newly synthesized glycoproteins from the ER to the ER-Golgi intermediate compartment (ERGIC). The most prominent cycling lectin is the mannose-binding type1 membrane protein ERGIC-53, which functions as a cargo receptor to facilitate export of glycoproteins from the ER. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat six-stranded beta-sheet referred to as the "back face". This domain homodimerizes so that adjacent back sheets form a contiguous 12-stranded she
Probab=97.54 E-value=0.0032 Score=55.25 Aligned_cols=118 Identities=21% Similarity=0.289 Sum_probs=66.6
Q ss_pred cEEEEEEeCCCCC---CCCCCCeeEEecC-CCCccccccccccc-cCCCCCccccC-CCCcEEEEEEEeCCccEEEEEEE
Q 036537 26 SLLAVEMDTYKNP---FDPDTNHIGLDTT-SAESVATKCMFGWK-KCLSSAGINLK-SGRPIKVQIYYDGLTKMLYVYMA 99 (212)
Q Consensus 26 ~~vAVEFDT~~n~---~Dp~~nHVgIdvn-s~~S~~t~~~~~y~-~~~~~~~~~l~-~G~~~~vwI~Yd~~s~~L~V~l~ 99 (212)
.=+||-|||+.|. .....+-|.+-+| +....... .-+.. .-+.+ ....+ .+.+..++|.|... .|.|.++
T Consensus 101 ~Gl~I~~Dt~~n~~~~~~~~~P~i~~~~NDGt~~yd~~-~Dg~~~~~~~C-~~~~rn~~~~t~~rI~Y~~~--~l~v~vd 176 (248)
T cd06901 101 HGLAIFFDTYSNQNGEHEHVHPYISAMVNNGSLSYDHD-RDGTHTELAGC-SAPFRNKDHDTFVAIRYSKG--RLTVMTD 176 (248)
T ss_pred ceEEEEEECCCCCCCcccCCCceEEEEEcCCCeeeccc-CCCchhhcCce-eeeccCCCCCeEEEEEEECC--eEEEEEe
Confidence 3699999999882 1122334544333 32221110 00000 00011 11222 34567899999974 5777776
Q ss_pred ECCCC-cceeeeeeecCCC-CCCCeEEEEEEeecCCcccceEEEeEEEEecCCC
Q 036537 100 YSGDQ-LQKSMEKPIIMSE-TVPSSVYVGFTAATGELSESHQLLDWTFTTFPLP 151 (212)
Q Consensus 100 ~~~kp-~~plLs~~vdLs~-~l~~~v~VGFSASTG~~~q~h~I~sWsF~s~~~~ 151 (212)
..++. -..++.. .. .||...|+||||+||...+.|+|++-.+..-..+
T Consensus 177 ~~~~~~w~~Cf~~----~~v~LP~~~yfGiSA~Tg~~sd~hdIlsv~~~~l~~~ 226 (248)
T cd06901 177 IDGKNEWKECFDV----TGVRLPTGYYFGASAATGDLSDNHDIISMKLYELDVE 226 (248)
T ss_pred cCCCCceeeeEEe----CCeecCCCCEEEEEecCCCCCCcEEEEEEEEecCccc
Confidence 53221 1233332 22 4677799999999999999999999877654443
No 7
>cd06903 lectin_EMP46_EMP47 EMP46 and EMP47 type 1 transmembrane proteins, N-terminal lectin domain. EMP46 and EMP47, N-terminal carbohydrate recognition domain. EMP46 and EMP47 are fungal type-I transmembrane proteins that cycle between the endoplasmic reticulum and the golgi apparatus and are thought to function as cargo receptors that transport newly synthesized glycoproteins. EMP47 is a receptor for EMP46 responsible for the selective transport of EMP46 by forming hetero-oligomerization between the two proteins. EMP46 and EMP47 have an N-terminal lectin-like carbohydrate recognition domain (represented by this alignment model) as well as a C-terminal transmembrane domain. EMP46 and EMP47 are 45% sequence-identical to one another and have sequence homology to a class of intracellular lectins defined by ERGIC-53 and VIP36. L-type lectins have a dome-shaped beta-barrel carbohydrate recognition domain with a curved seven-stranded beta-sheet referred to as the "front face" and a flat s
Probab=97.39 E-value=0.0036 Score=53.82 Aligned_cols=63 Identities=24% Similarity=0.418 Sum_probs=46.8
Q ss_pred CCCCcEEEEEEEeCCccEEEEEEEECCCCcceeeee-eecCCCCCC-CeEEEEEEeecCCcccceEEEeEEEEe
Q 036537 76 KSGRPIKVQIYYDGLTKMLYVYMAYSGDQLQKSMEK-PIIMSETVP-SSVYVGFTAATGELSESHQLLDWTFTT 147 (212)
Q Consensus 76 ~~G~~~~vwI~Yd~~s~~L~V~l~~~~kp~~plLs~-~vdLs~~l~-~~v~VGFSASTG~~~q~h~I~sWsF~s 147 (212)
+.+.+.+++|.|....+.|+|.++. +.++.. .+. || ...|+||||+||...+.|+|++-.+..
T Consensus 149 n~~~p~~iri~Y~~~~~~l~v~vd~-----~~Cf~~~~v~----lP~~~y~fGiSAaTg~~~d~hdIl~~~~~~ 213 (215)
T cd06903 149 DSGVPSTIRLSYDALNSLFKVQVDN-----RLCFQTDKVQ----LPQGGYRFGITAANADNPESFEILKLKVWN 213 (215)
T ss_pred CCCCCEEEEEEEECCCCEEEEEECC-----CEEEecCCee----cCCCCCEEEEEEcCCCCCCcEEEEEEEEec
Confidence 3466899999999977789988753 234433 233 45 456899999999999999999876543
No 8
>PF03388 Lectin_leg-like: Legume-like lectin family; InterPro: IPR005052 Lectins are structurally diverse proteins that bind to specific carbohydrates. This family includes the VIP36 and ERGIC-53 lectins. These two proteins were the first members of the family of animal lectins similar to the leguminous plant lectins []. The alignment for this family is towards the N terminus, where the similarity of VIP36 and ERGIC-53 is greatest. Although they have been identified as a family of animal lectins, this alignment also includes yeast sequences[]. ERGIC-53 is a 53kDa protein, localised to the intermediate region between the endoplasmic reticulum and the Golgi apparatus (ER-Golgi-Intermediate Compartment, ERGIC). It was identified as a calcium-dependent, mannose-specific lectin []. Its dysfunction has been associated with combined factors V and VIII deficiency, suggesting an important and substrate-specific role for ERGIC-53 in the glycoprotein-secreting pathway [,]. The L-type lectin-like domain has an overall globular shape composed of a beta-sandwich of two major twisted antiparallel beta-sheets. The beta-sandwich comprises a major concave beta-sheet and a minor convex beta-sheet, in a variation of the jelly roll fold [, , , ]. ; GO: 0016020 membrane; PDB: 3A4U_A 3LCP_B 2A6Z_A 2A71_C 2A70_B 2A6Y_A 2A6X_A 2A6W_B 2A6V_B 2E6V_B ....
Probab=97.26 E-value=0.0029 Score=54.64 Aligned_cols=128 Identities=26% Similarity=0.292 Sum_probs=69.7
Q ss_pred CCCCCeeeeeccC-----C------CCccEEEEEEeCCCCCCC---CCCCeeEEecCC-CCcccccccccccc-CCCCCc
Q 036537 9 RLDGCYTASLCLH-----G------VKVSLLAVEMDTYKNPFD---PDTNHIGLDTTS-AESVATKCMFGWKK-CLSSAG 72 (212)
Q Consensus 9 ~~~g~yLGL~~~~-----~------~~~~~vAVEFDT~~n~~D---p~~nHVgIdvns-~~S~~t~~~~~y~~-~~~~~~ 72 (212)
+..|+-|++.=.. + ..-.=++|=|||+.|.-. -..+.|.+-+|- ..+.... ..+... -+.+ .
T Consensus 75 ~~~g~G~a~W~t~~~~~~G~~fG~~~~f~Gl~i~idt~~N~~~~~~~~~p~i~~~~NDGt~~~~~~-~dg~~~~~~~C-~ 152 (229)
T PF03388_consen 75 GLGGDGMAFWYTKDPGSDGPVFGGPDKFDGLGIFIDTYDNDEGGHKRGFPYISAMLNDGTKSYDHD-NDGKDQSLGSC-S 152 (229)
T ss_dssp SS-S-EEEEEEESSSSSSCSBTTB-SS-EEEEEEEEES-TTCTTCTSTSSEEEEEEEESSS---GG-GTTTTT-SEEE-E
T ss_pred CcCCCeEEEEEEcCccccccccCCCcccceEEEEEEcccCCCcccccccceEEEEecCCCcccccc-ccCcccccccc-e
Confidence 3467778875221 1 123458999999988221 234556655542 1111111 000000 0011 1
Q ss_pred cccC-CCCcEEEEEEEeCCccEEEEEEEE----CCCCcceeeee-eecCCCCCCCeEEEEEEeecCCcccceEEEeEE
Q 036537 73 INLK-SGRPIKVQIYYDGLTKMLYVYMAY----SGDQLQKSMEK-PIIMSETVPSSVYVGFTAATGELSESHQLLDWT 144 (212)
Q Consensus 73 ~~l~-~G~~~~vwI~Yd~~s~~L~V~l~~----~~kp~~plLs~-~vdLs~~l~~~v~VGFSASTG~~~q~h~I~sWs 144 (212)
...+ .+.+..++|.|... .|.|.++. ....-..++.. .++ ||+..|+||||+||...+.|+|++-.
T Consensus 153 ~~~rn~~~p~~~ri~Y~~~--~l~v~id~~~~~~~~~~~~Cf~~~~v~----LP~~~yfGvSA~Tg~~~d~hdi~s~~ 224 (229)
T PF03388_consen 153 ADYRNSDVPTRIRISYSKN--TLTVSIDSNYLKNQDDWELCFTTDGVD----LPEGYYFGVSAATGELSDNHDILSVK 224 (229)
T ss_dssp ---BTESSEEEEEEEEETT--EEEEEEETSCCSECCTTEEEEEESTEE----GGSSBEEEEEEEESSSGGEEEEEEEE
T ss_pred eccCcCCCCEEEEEEEECC--eEEEEEecccccCCcCCcEEEEcCCee----cCCCCEEEEEecCCCCCCcEEEEEEE
Confidence 2222 24577899999995 57777763 12333455554 333 57778999999999999999999854
No 9
>KOG3838 consensus Mannose lectin ERGIC-53, involved in glycoprotein traffic [Intracellular trafficking, secretion, and vesicular transport]
Probab=96.64 E-value=0.031 Score=52.27 Aligned_cols=112 Identities=20% Similarity=0.287 Sum_probs=66.6
Q ss_pred EEEEEEeCCCCCCCCCCCeeEEecCC-CCcccccccccccc-CC--CCCccccCCC-CcEEEEEEEeCCccEEEEEEEEC
Q 036537 27 LLAVEMDTYKNPFDPDTNHIGLDTTS-AESVATKCMFGWKK-CL--SSAGINLKSG-RPIKVQIYYDGLTKMLYVYMAYS 101 (212)
Q Consensus 27 ~vAVEFDT~~n~~Dp~~nHVgIdvns-~~S~~t~~~~~y~~-~~--~~~~~~l~~G-~~~~vwI~Yd~~s~~L~V~l~~~ 101 (212)
-+++=||.+.|+---|.+-|.+-.|. ..+-... +-.+ .+ ++ --+++|. -+..++|+|-. ++|+|.+...
T Consensus 135 GigiffDSfdnD~qknnP~Is~~lndGt~~ydh~---~DGasQ~LssC-qrDFRNkPyPvRarItY~~--nvLtv~innG 208 (497)
T KOG3838|consen 135 GIGIFFDSFDNDGQKNNPAISVLLNDGTIPYDHP---GDGASQGLSSC-QRDFRNKPYPVRARITYYG--NVLTVMINNG 208 (497)
T ss_pred ceEEEeecccccCCcCCccEEEEecCCcccccCC---CccHHHHHHHh-hHHhccCCCCceEEEEEec--cEEEEEEcCC
Confidence 57899999987222244556665542 2221111 0000 00 11 1122332 25789999988 6799999874
Q ss_pred CCCcceeeeeeecCCC-CCCCeEEEEEEeecCCcccceEEEeEEE
Q 036537 102 GDQLQKSMEKPIIMSE-TVPSSVYVGFTAATGELSESHQLLDWTF 145 (212)
Q Consensus 102 ~kp~~plLs~~vdLs~-~l~~~v~VGFSASTG~~~q~h~I~sWsF 145 (212)
-.|..+ -.--++..+ +||..-|+|.||+||+.-.-|+|+++.-
T Consensus 209 mtp~d~-yE~C~rve~~~lp~nGyFGvSAATGgLADDHDVl~Flt 252 (497)
T KOG3838|consen 209 MTPSDD-YEFCVRVENLLLPPNGYFGVSAATGGLADDHDVLSFLT 252 (497)
T ss_pred CCCCCC-cceeEeccceeccCCCeeeeeecccccccccceeeeEE
Confidence 344321 122233334 4688999999999999999999999853
No 10
>KOG3839 consensus Lectin VIP36, involved in the transport of glycoproteins carrying high mannose-type glycans [Intracellular trafficking, secretion, and vesicular transport]
Probab=93.48 E-value=0.066 Score=48.99 Aligned_cols=60 Identities=25% Similarity=0.463 Sum_probs=44.1
Q ss_pred EEEEEEEeCCccEEEEEEEECCCCcceeeeeeecCCC-CCCCeEEEEEEeecCCcccceEEEeEEE
Q 036537 81 IKVQIYYDGLTKMLYVYMAYSGDQLQKSMEKPIIMSE-TVPSSVYVGFTAATGELSESHQLLDWTF 145 (212)
Q Consensus 81 ~~vwI~Yd~~s~~L~V~l~~~~kp~~plLs~~vdLs~-~l~~~v~VGFSASTG~~~q~h~I~sWsF 145 (212)
-.+.|.|+. ++|++..+..++ ..+.--.+|.+ .||.-=|+|+||+||...+.|+|.+-.+
T Consensus 212 t~~~iry~~--~~l~~~~dl~~~---~~~~~c~~~n~v~lp~g~~fg~SasTGdlSd~HdivS~kl 272 (351)
T KOG3839|consen 212 TLVVIRYEK--KTLSISIDLEGP---NEWIDCFSLNNVELPLGYFFGVSASTGDLSDSHDIVSLKL 272 (351)
T ss_pred ceeEEEecC--CceEEEEecCCC---ceeeeeeeecceecccceEEeeeeccCccchhhHHHHhhh
Confidence 468899999 667776665432 23444566666 4777889999999999999999987643
No 11
>cd06900 lectin_VcfQ VcfQ bacterial pilus biogenesis protein, lectin domain. This family includes bacterial proteins homologous to the VcfQ (also known as MshQ) bacterial pilus biogenesis protein. VcfQ is encoded by the vcfQ gene of the type IV pilus gene cluster of Vibrio cholerae and is essential for type IV pilus assembly. VcfQ has a Laminin G-like domain as well as an L-type lectin domain.
Probab=91.56 E-value=5.9 Score=35.12 Aligned_cols=29 Identities=24% Similarity=0.676 Sum_probs=25.5
Q ss_pred CCCCCeEEEEEEeecCCcccceEEEeEEE
Q 036537 117 ETVPSSVYVGFTAATGELSESHQLLDWTF 145 (212)
Q Consensus 117 ~~l~~~v~VGFSASTG~~~q~h~I~sWsF 145 (212)
.-+|+..+++|++|||.....|.|-..+.
T Consensus 225 ~avP~~f~lS~TgSTGgstN~HEIdnf~V 253 (255)
T cd06900 225 DAIPENFYLSFTGSTGGSTNTHEIDNFQV 253 (255)
T ss_pred CCCCccEEEEEEecCCCcccceeecceEe
Confidence 45789999999999999999999977654
No 12
>PF04478 Mid2: Mid2 like cell wall stress sensor; InterPro: IPR007567 This family represents a region near the C terminus of Mid2, which contains a transmembrane region. The remainder of the protein sequence is serine-rich and of low complexity, and is therefore impossible to align accurately. Mid2 is thought to act as a mechanosensor of cell wall stress. The C-terminal cytoplasmic region of Mid2 is known to interact with Rom2, a guanine nucleotide exchange factor (GEF) for Rho1, which is part of the cell wall integrity signalling pathway [].
Probab=85.15 E-value=0.54 Score=38.66 Aligned_cols=29 Identities=10% Similarity=0.341 Sum_probs=15.2
Q ss_pred eeeeeehhhHHH--HHHHhheeeeEEE-eeec
Q 036537 168 KINIVGLLCKMC--TCVEMIFVLYMYG-FYKR 196 (212)
Q Consensus 168 ~~~~~G~~~~~~--~~~~~~~~l~~~~-~~~r 196 (212)
+..++|+++|+. +++++++++|++. |+||
T Consensus 48 knIVIGvVVGVGg~ill~il~lvf~~c~r~kk 79 (154)
T PF04478_consen 48 KNIVIGVVVGVGGPILLGILALVFIFCIRRKK 79 (154)
T ss_pred ccEEEEEEecccHHHHHHHHHhheeEEEeccc
Confidence 345777777772 3334455555443 4443
No 13
>PF15065 NCU-G1: Lysosomal transcription factor, NCU-G1
Probab=78.67 E-value=3.6 Score=38.09 Aligned_cols=28 Identities=21% Similarity=0.251 Sum_probs=24.1
Q ss_pred EEEEEEeecCCcccceEEEeEEEEecCC
Q 036537 123 VYVGFTAATGELSESHQLLDWTFTTFPL 150 (212)
Q Consensus 123 v~VGFSASTG~~~q~h~I~sWsF~s~~~ 150 (212)
+.|=|..+++..+..+..++|++..-.-
T Consensus 281 ~nvSFG~~gDgfY~~t~ylsWt~~~G~G 308 (350)
T PF15065_consen 281 LNVSFGTSGDGFYWATNYLSWTFLIGYG 308 (350)
T ss_pred EEEEeccCCCCcccccceEEEEEecccC
Confidence 7788888888889999999999987744
No 14
>PF08693 SKG6: Transmembrane alpha-helix domain; InterPro: IPR014805 SKG6 and AXL2 are membrane proteins that show polarised intracellular localisation [, ]. This entry represents the highly conserved transmembrane alpha-helical domain found in these proteins [, ]. The full-length AXL2 protein has a negative regulatory function in cytokinesis [].
Probab=78.02 E-value=0.63 Score=29.91 Aligned_cols=26 Identities=15% Similarity=0.184 Sum_probs=11.2
Q ss_pred eeeehhhHHHHH-HHhheeeeEEEeee
Q 036537 170 NIVGLLCKMCTC-VEMIFVLYMYGFYK 195 (212)
Q Consensus 170 ~~~G~~~~~~~~-~~~~~~l~~~~~~~ 195 (212)
+.+|+..-.+++ ++..+.||+|.||+
T Consensus 13 Ia~~VvVPV~vI~~vl~~~l~~~~rR~ 39 (40)
T PF08693_consen 13 IAVGVVVPVGVIIIVLGAFLFFWYRRK 39 (40)
T ss_pred EEEEEEechHHHHHHHHHHhheEEecc
Confidence 345554444222 23334455554443
No 15
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=69.20 E-value=0.4 Score=38.02 Aligned_cols=24 Identities=13% Similarity=0.324 Sum_probs=12.2
Q ss_pred eeeehhhHH-HHHHHhheeeeEEEe
Q 036537 170 NIVGLLCKM-CTCVEMIFVLYMYGF 193 (212)
Q Consensus 170 ~~~G~~~~~-~~~~~~~~~l~~~~~ 193 (212)
.++|.++|+ |.+++.+++++|+.|
T Consensus 65 ~i~~Ii~gv~aGvIg~Illi~y~ir 89 (122)
T PF01102_consen 65 AIIGIIFGVMAGVIGIILLISYCIR 89 (122)
T ss_dssp CHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ceeehhHHHHHHHHHHHHHHHHHHH
Confidence 356666666 444444444444444
No 16
>PF15102 TMEM154: TMEM154 protein family
Probab=64.86 E-value=7.4 Score=31.81 Aligned_cols=28 Identities=21% Similarity=0.215 Sum_probs=12.6
Q ss_pred eeeehhhHHHHHHHhheeeeEEEeeecCC
Q 036537 170 NIVGLLCKMCTCVEMIFVLYMYGFYKRIK 198 (212)
Q Consensus 170 ~~~G~~~~~~~~~~~~~~l~~~~~~~r~~ 198 (212)
+++.+++++ ++++.++.+.++.||||.|
T Consensus 61 IlIP~VLLv-lLLl~vV~lv~~~kRkr~K 88 (146)
T PF15102_consen 61 ILIPLVLLV-LLLLSVVCLVIYYKRKRTK 88 (146)
T ss_pred EeHHHHHHH-HHHHHHHHheeEEeecccC
Confidence 455555555 3333333344444544443
No 17
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=60.21 E-value=2.9 Score=29.59 Aligned_cols=9 Identities=0% Similarity=0.065 Sum_probs=0.0
Q ss_pred eeeehhhHH
Q 036537 170 NIVGLLCKM 178 (212)
Q Consensus 170 ~~~G~~~~~ 178 (212)
+++|+|.|.
T Consensus 10 vlaavIaG~ 18 (64)
T PF01034_consen 10 VLAAVIAGG 18 (64)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 455555555
No 18
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=58.85 E-value=9.7 Score=28.72 Aligned_cols=9 Identities=22% Similarity=0.457 Sum_probs=4.9
Q ss_pred eeeehhhHH
Q 036537 170 NIVGLLCKM 178 (212)
Q Consensus 170 ~~~G~~~~~ 178 (212)
.++|.++++
T Consensus 67 aiagi~vg~ 75 (96)
T PTZ00382 67 AIAGISVAV 75 (96)
T ss_pred cEEEEEeeh
Confidence 356655554
No 19
>PF06024 DUF912: Nucleopolyhedrovirus protein of unknown function (DUF912); InterPro: IPR009261 This entry is represented by Autographa californica nuclear polyhedrosis virus (AcMNPV), Orf78; it is a family of uncharacterised viral proteins.
Probab=54.66 E-value=9.4 Score=28.93 Aligned_cols=27 Identities=22% Similarity=0.406 Sum_probs=16.4
Q ss_pred eeeehhhHHHHHHHhheeeeEEEeeec
Q 036537 170 NIVGLLCKMCTCVEMIFVLYMYGFYKR 196 (212)
Q Consensus 170 ~~~G~~~~~~~~~~~~~~l~~~~~~~r 196 (212)
+++|++...|+++...++.||+..|+|
T Consensus 64 ili~lls~v~IlVily~IyYFVILRer 90 (101)
T PF06024_consen 64 ILISLLSFVCILVILYAIYYFVILRER 90 (101)
T ss_pred hHHHHHHHHHHHHHHhhheEEEEEecc
Confidence 466666666666666666666553333
No 20
>PF05454 DAG1: Dystroglycan (Dystrophin-associated glycoprotein 1); InterPro: IPR008465 Dystroglycan is one of the dystrophin-associated glycoproteins, which is encoded by a 5.5 kb transcript in Homo sapiens. The protein product is cleaved into two non-covalently associated subunits, [alpha] (N-terminal) and [beta] (C-terminal). In skeletal muscle the dystroglycan complex works as a transmembrane linkage between the extracellular matrix and the cytoskeleton [alpha]-dystroglycan is extracellular and binds to merosin ([alpha]-2 laminin) in the basement membrane, while [beta]-dystroglycan is a transmembrane protein and binds to dystrophin, which is a large rod-like cytoskeletal protein, absent in Duchenne muscular dystrophy patients. Dystrophin binds to intracellular actin cables. In this way, the dystroglycan complex, which links the extracellular matrix to the intracellular actin cables, is thought to provide structural integrity in muscle tissues. The dystroglycan complex is also known to serve as an agrin receptor in muscle, where it may regulate agrin-induced acetylcholine receptor clustering at the neuromuscular junction. There is also evidence which suggests the function of dystroglycan as a part of the signal transduction pathway because it is shown that Grb2, a mediator of the Ras-related signal pathway, can interact with the cytoplasmic domain of dystroglycan. In general, aberrant expression of dystrophin-associated protein complex underlies the pathogenesis of Duchenne muscular dystrophy, Becker muscular dystrophy and severe childhood autosomal recessive muscular dystrophy. Interestingly, no genetic disease has been described for either [alpha]- or [beta]-dystroglycan. Dystroglycan is widely distributed in non-muscle tissues as well as in muscle tissues. During epithelial morphogenesis of kidney, the dystroglycan complex is shown to act as a receptor for the basement membrane. Dystroglycan expression in Mus musculus brain and neural retina has also been reported. However, the physiological role of dystroglycan in non-muscle tissues has remained unclear [].; PDB: 1EG4_P.
Probab=54.00 E-value=4.2 Score=36.71 Aligned_cols=30 Identities=13% Similarity=0.043 Sum_probs=0.0
Q ss_pred eeeeehhhHHHHHHHhheeeeEEEeeecCC
Q 036537 169 INIVGLLCKMCTCVEMIFVLYMYGFYKRIK 198 (212)
Q Consensus 169 ~~~~G~~~~~~~~~~~~~~l~~~~~~~r~~ 198 (212)
+++.+++++++.+++++++|+.+.|||+.|
T Consensus 148 T~IpaVVI~~iLLIA~iIa~icyrrkR~GK 177 (290)
T PF05454_consen 148 TFIPAVVIAAILLIAGIIACICYRRKRKGK 177 (290)
T ss_dssp ------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhhhhhccc
Confidence 346666666655556666666665555544
No 21
>PF14610 DUF4448: Protein of unknown function (DUF4448)
Probab=51.19 E-value=14 Score=30.73 Aligned_cols=29 Identities=10% Similarity=0.260 Sum_probs=14.5
Q ss_pred eeeeehhhHHHHHHHhheeeeEEEe-eecC
Q 036537 169 INIVGLLCKMCTCVEMIFVLYMYGF-YKRI 197 (212)
Q Consensus 169 ~~~~G~~~~~~~~~~~~~~l~~~~~-~~r~ 197 (212)
.++++|-....++++++..+++|.| +||+
T Consensus 159 ~laI~lPvvv~~~~~~~~~~~~~~R~~Rri 188 (189)
T PF14610_consen 159 ALAIALPVVVVVLALIMYGFFFWNRKKRRI 188 (189)
T ss_pred eEEEEccHHHHHHHHHHHhhheeeccceec
Confidence 4577776655333333344444444 5554
No 22
>PTZ00382 Variant-specific surface protein (VSP); Provisional
Probab=47.88 E-value=6.2 Score=29.79 Aligned_cols=22 Identities=5% Similarity=-0.013 Sum_probs=12.9
Q ss_pred eeeeehhhHHHHHHHhheeeeEE
Q 036537 169 INIVGLLCKMCTCVEMIFVLYMY 191 (212)
Q Consensus 169 ~~~~G~~~~~~~~~~~~~~l~~~ 191 (212)
++++|+++.+ +++++|...||+
T Consensus 70 gi~vg~~~~v-~~lv~~l~w~f~ 91 (96)
T PTZ00382 70 GISVAVVAVV-GGLVGFLCWWFV 91 (96)
T ss_pred EEEeehhhHH-HHHHHHHhheeE
Confidence 3678877666 555555444443
No 23
>PF07213 DAP10: DAP10 membrane protein; InterPro: IPR009861 This family consists of several mammalian DAP10 membrane proteins. In activated mouse natural killer (NK) cells, the NKG2D receptor associates with two intracellular adaptors, DAP10 and DAP12, which trigger phosphatidyl inositol 3 kinase (PI3K) and Syk family protein tyrosine kinases, respectively. It has been suggested that the DAP10-PI3K pathway is sufficient to initiate NKG2D-mediated killing of target cells [].
Probab=45.02 E-value=5.1 Score=29.46 Aligned_cols=33 Identities=12% Similarity=0.186 Sum_probs=20.2
Q ss_pred eeeeeehhhHH-HHHHHhheeeeEEEe-eecCCCC
Q 036537 168 KINIVGLLCKM-CTCVEMIFVLYMYGF-YKRIKIP 200 (212)
Q Consensus 168 ~~~~~G~~~~~-~~~~~~~~~l~~~~~-~~r~~~p 200 (212)
..+++|+++|= .+-+..+++.|++.+ |||.+..
T Consensus 33 ~g~LaGiV~~D~vlTLLIv~~vy~car~r~r~~~~ 67 (79)
T PF07213_consen 33 PGLLAGIVAADAVLTLLIVLVVYYCARPRRRPTQE 67 (79)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhhcccccCCccc
Confidence 33688888887 333455566777776 5555443
No 24
>PF01034 Syndecan: Syndecan domain; InterPro: IPR001050 The syndecans are transmembrane proteoglycans which are involved in the organisation of cytoskeleton and/or actin microfilaments, and have important roles as cell surface receptors during cell-cell and/or cell-matrix interactions [, ]. Structurally, these proteins consist of four separate domains: A signal sequence; An extracellular domain (ectodomain) of variable length whose sequence is not evolutionary conserved in the various forms of syndecans. The ectodomain contains the sites of attachment of the heparan sulphate glycosaminoglycan side chains; A transmembrane region; A highly conserved cytoplasmic domain of about 30 to 35 residues, which could interact with cytoskeletal proteins. The proteins known to belong to this family are: Syndecan 1. Syndecan 2 or fibroglycan. Syndecan 3 or neuroglycan or N-syndecan. Syndecan 4 or amphiglycan or ryudocan. Drosophila syndecan. Caenorhabditis elegans probable syndecan (F57C7.3). Syndecan-4, a transmembrane heparan sulphate proteoglycan, is a coreceptor with integrins in cell adhesion. It has been suggested to form a ternary signalling complex with protein kinase Calpha and phosphatidylinositol 4,5-bisphosphate (PIP2). Structural studies have demonstrated that the cytoplasmic domain undergoes a conformational transition and forms a symmetric dimer in the presence of phospholipid activator PIP2, and whose overall structure in solution exhibits a twisted clamp shape having a cavity in the centre of dimeric interface. In addition, it has been observed that the syndecan-4 variable domain interacts, strongly, not only with fatty acyl groups but also the anionic head group of PIP2. These findings indicate that PIP2 promotes oligomerisation of the syndecan-4 cytoplasmic domain for transmembrane signalling and cell-matrix adhesion [, ].; GO: 0008092 cytoskeletal protein binding, 0016020 membrane; PDB: 1EJQ_B 1EJP_B 1YBO_C 1OBY_Q.
Probab=44.22 E-value=7.9 Score=27.35 Aligned_cols=9 Identities=22% Similarity=0.283 Sum_probs=0.0
Q ss_pred eeeehhhHH
Q 036537 170 NIVGLLCKM 178 (212)
Q Consensus 170 ~~~G~~~~~ 178 (212)
+++|.++|+
T Consensus 14 vIaG~Vvgl 22 (64)
T PF01034_consen 14 VIAGGVVGL 22 (64)
T ss_dssp ---------
T ss_pred HHHHHHHHH
Confidence 577777777
No 25
>PF13908 Shisa: Wnt and FGF inhibitory regulator
Probab=37.52 E-value=24 Score=28.94 Aligned_cols=12 Identities=33% Similarity=0.728 Sum_probs=8.3
Q ss_pred eeeehhhHHHHH
Q 036537 170 NIVGLLCKMCTC 181 (212)
Q Consensus 170 ~~~G~~~~~~~~ 181 (212)
+++|++++++++
T Consensus 80 iivgvi~~Vi~I 91 (179)
T PF13908_consen 80 IIVGVICGVIAI 91 (179)
T ss_pred eeeehhhHHHHH
Confidence 578888877333
No 26
>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=37.04 E-value=7.9 Score=30.33 Aligned_cols=10 Identities=20% Similarity=0.232 Sum_probs=4.2
Q ss_pred eeecCCCCCc
Q 036537 193 FYKRIKIPPH 202 (212)
Q Consensus 193 ~~~r~~~p~~ 202 (212)
||||..+.+.
T Consensus 25 RR~r~G~~P~ 34 (130)
T PF12273_consen 25 RRRRRGLQPI 34 (130)
T ss_pred HHhhcCCCCc
Confidence 3444344443
No 27
>PF11770 GAPT: GRB2-binding adapter (GAPT); InterPro: IPR021082 This entry represents a family of transmembrane proteins which bind the growth factor receptor-bound protein 2 (GRB2) in B cells []. In contrast to other transmembrane adaptor proteins, GAPT, which this entry represents, is not phosphorylated upon BCR ligation. It associates with GRB2 constitutively through its proline-rich region [].
Probab=35.33 E-value=17 Score=29.97 Aligned_cols=24 Identities=8% Similarity=0.034 Sum_probs=18.0
Q ss_pred eeeehhhHHHHHHHhheeeeEEEe
Q 036537 170 NIVGLLCKMCTCVEMIFVLYMYGF 193 (212)
Q Consensus 170 ~~~G~~~~~~~~~~~~~~l~~~~~ 193 (212)
+.+|+.+...+++++++..|+|..
T Consensus 12 i~igi~Ll~lLl~cgiGcvwhwkh 35 (158)
T PF11770_consen 12 ISIGISLLLLLLLCGIGCVWHWKH 35 (158)
T ss_pred HHHHHHHHHHHHHHhcceEEEeec
Confidence 466776666677789999998864
No 28
>PF02480 Herpes_gE: Alphaherpesvirus glycoprotein E; InterPro: IPR003404 Glycoprotein E (gE) of Alphaherpesvirus forms a complex with glycoprotein I (gI), functioning as an immunoglobulin G (IgG) Fc binding protein. gE is involved in virus spread but is not essential for propagation [].; GO: 0016020 membrane; PDB: 2GJ7_F 2GIY_B.
Probab=33.12 E-value=14 Score=35.14 Aligned_cols=6 Identities=33% Similarity=1.138 Sum_probs=3.5
Q ss_pred EEeEEE
Q 036537 140 LLDWTF 145 (212)
Q Consensus 140 I~sWsF 145 (212)
+..|..
T Consensus 294 v~aW~y 299 (439)
T PF02480_consen 294 VEAWTY 299 (439)
T ss_dssp EEEEEE
T ss_pred eeeeEE
Confidence 456755
No 29
>PF11857 DUF3377: Domain of unknown function (DUF3377); InterPro: IPR021805 This domain is functionally uncharacterised and found at the C terminus of peptidases belonging to MEROPS peptidase family M10A, membrane-type matrix metallopeptidases (clan MA). ; GO: 0004222 metalloendopeptidase activity
Probab=31.13 E-value=56 Score=23.75 Aligned_cols=35 Identities=14% Similarity=0.246 Sum_probs=19.8
Q ss_pred eeehhhHHHHHHHhheeeeEEEeeecCCCCCccce
Q 036537 171 IVGLLCKMCTCVEMIFVLYMYGFYKRIKIPPHNFH 205 (212)
Q Consensus 171 ~~G~~~~~~~~~~~~~~l~~~~~~~r~~~p~~~~~ 205 (212)
++.++.=...+++.++++|.+...||-..|++-.+
T Consensus 31 avaVviPl~L~LCiLvl~yai~~fkrkGtPr~llY 65 (74)
T PF11857_consen 31 AVAVVIPLVLLLCILVLIYAIFQFKRKGTPRRLLY 65 (74)
T ss_pred EEEEeHHHHHHHHHHHHHHHhheeeecCCCcEEEE
Confidence 44443333344455566666666777777876544
No 30
>smart00282 LamG Laminin G domain.
Probab=29.91 E-value=2.4e+02 Score=21.04 Aligned_cols=26 Identities=15% Similarity=0.165 Sum_probs=20.0
Q ss_pred cccCCCCcEEEEEEEeCCccEEEEEEEE
Q 036537 73 INLKSGRPIKVQIYYDGLTKMLYVYMAY 100 (212)
Q Consensus 73 ~~l~~G~~~~vwI~Yd~~s~~L~V~l~~ 100 (212)
..+.+|+.|++.|.++... +.++++.
T Consensus 57 ~~~~dg~WH~v~i~~~~~~--~~l~VD~ 82 (135)
T smart00282 57 TPLNDGQWHRVAVERNGRR--VTLSVDG 82 (135)
T ss_pred eEeCCCCEEEEEEEEeCCE--EEEEECC
Confidence 5688999999999999754 5555553
No 31
>PF00054 Laminin_G_1: Laminin G domain; InterPro: IPR012679 Laminins are large heterotrimeric glycoproteins involved in basement membrane function []. The laminin globular (G) domain can be found in one to several copies in various laminin family members, which includes a large number of extracellular proteins. The C terminus of laminin alpha chain contains a tandem repeat of five laminin G domains, which are critical for heparin-binding and cell attachment activity []. Laminin alpha4 is distributed in a variety of tissues including peripheral nerves, dorsal root ganglion, skeletal muscle and capillaries; in the neuromuscular junction, it is required for synaptic specialisation []. The structure of the laminin-G domain has been predicted to resemble that of pentraxin []. Laminin G domains can vary in their function, and a variety of binding functions has been ascribed to different LamG modules. For example, the laminin alpha1 and alpha2 chains each has five C-teminal laminin G domains, where only domains LG4 and LG5 contain binding sites for heparin, sulphatides and the cell surface receptor dystroglycan []. Laminin G-containing proteins appear to have a wide variety of roles in cell adhesion, signalling, migration, assembly and differentiation. This entry represents one subtype of laminin G domains, which is sometimes found in association with thrombospondin-type laminin G domains (IPR012680 from INTERPRO).; PDB: 1OKQ_A 1DYK_A 2C5D_A 1H30_A 1LHW_A 1KDK_A 1LHU_A 1KDM_A 1LHO_A 1D2S_A ....
Probab=29.68 E-value=2.2e+02 Score=21.61 Aligned_cols=23 Identities=22% Similarity=0.294 Sum_probs=18.9
Q ss_pred ccCCCCcEEEEEEEeCCccEEEE
Q 036537 74 NLKSGRPIKVQIYYDGLTKMLYV 96 (212)
Q Consensus 74 ~l~~G~~~~vwI~Yd~~s~~L~V 96 (212)
.+.+|++|++.+..+.....|+|
T Consensus 49 ~i~dg~wh~v~~~r~~~~~~L~V 71 (131)
T PF00054_consen 49 KINDGKWHTVSVSRNGRNGSLSV 71 (131)
T ss_dssp ETTSSSEEEEEEEEETTEEEEEE
T ss_pred ccCCCcceEEEEEEcCcEEEEEE
Confidence 48899999999999987655554
No 32
>cd00110 LamG Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of purposes including signal transduction via cell-surface steroid receptors, adhesion, migration and differentiation through mediation of cell adhesion molecules.
Probab=27.60 E-value=2.6e+02 Score=20.84 Aligned_cols=25 Identities=16% Similarity=0.199 Sum_probs=20.2
Q ss_pred ccCCCCcEEEEEEEeCCccEEEEEEEE
Q 036537 74 NLKSGRPIKVQIYYDGLTKMLYVYMAY 100 (212)
Q Consensus 74 ~l~~G~~~~vwI~Yd~~s~~L~V~l~~ 100 (212)
.+.+|+.|++.|.++. +.+.++++.
T Consensus 76 ~v~dg~Wh~v~i~~~~--~~~~l~VD~ 100 (151)
T cd00110 76 PLNDGQWHSVSVERNG--RSVTLSVDG 100 (151)
T ss_pred ccCCCCEEEEEEEECC--CEEEEEECC
Confidence 4889999999999998 456666654
No 33
>smart00159 PTX Pentraxin / C-reactive protein / pentaxin family. This family form a doscoid pentameric structure. Human serum amyloid P demonstrates calcium-mediated ligand-binding.
Probab=26.93 E-value=81 Score=26.36 Aligned_cols=28 Identities=4% Similarity=0.100 Sum_probs=25.2
Q ss_pred cccCCCCcEEEEEEEeCCccEEEEEEEE
Q 036537 73 INLKSGRPIKVQIYYDGLTKMLYVYMAY 100 (212)
Q Consensus 73 ~~l~~G~~~~vwI~Yd~~s~~L~V~l~~ 100 (212)
..+.+|+.+++-++||+.++.+++|++.
T Consensus 85 ~~~~~g~W~hvc~tw~~~~g~~~lyvnG 112 (206)
T smart00159 85 VPESDGKWHHICTTWESSSGIAELWVDG 112 (206)
T ss_pred ccccCCceEEEEEEEECCCCcEEEEECC
Confidence 3577899999999999999999999986
No 34
>PF06697 DUF1191: Protein of unknown function (DUF1191); InterPro: IPR010605 This family contains hypothetical plant proteins of unknown function.
Probab=26.09 E-value=3.1e+02 Score=24.73 Aligned_cols=23 Identities=13% Similarity=0.186 Sum_probs=11.7
Q ss_pred eeeehhhHH-HHHHHhheeeeEEE
Q 036537 170 NIVGLLCKM-CTCVEMIFVLYMYG 192 (212)
Q Consensus 170 ~~~G~~~~~-~~~~~~~~~l~~~~ 192 (212)
+++|++.|+ .+++.++++++..+
T Consensus 215 iv~g~~~G~~~L~ll~~lv~~~vr 238 (278)
T PF06697_consen 215 IVVGVVGGVVLLGLLSLLVAMLVR 238 (278)
T ss_pred EEEEehHHHHHHHHHHHHHHhhhh
Confidence 566766666 23334444444443
No 35
>PF12248 Methyltransf_FA: Farnesoic acid 0-methyl transferase; InterPro: IPR022041 This domain, found in farnesoic acid O-methyl transferase, is approximately 110 amino acids in length. Farnesoic acid O-methyl transferase (FAMeT) is the enzyme that catalyses the formation of methyl farnesoate (MF) from farnesoic acid (FA) in the biosynthetic pathway of juvenile hormone (JH) [].
Probab=25.87 E-value=2.8e+02 Score=20.53 Aligned_cols=46 Identities=20% Similarity=0.058 Sum_probs=30.7
Q ss_pred cCCCCcEEEEEEEeCCccEEEEEEEECCCCcceeeeeeecCCCCCCCeEEEEEE
Q 036537 75 LKSGRPIKVQIYYDGLTKMLYVYMAYSGDQLQKSMEKPIIMSETVPSSVYVGFT 128 (212)
Q Consensus 75 l~~G~~~~vwI~Yd~~s~~L~V~l~~~~kp~~plLs~~vdLs~~l~~~v~VGFS 128 (212)
|...+...-||.++. ..++|.... ...|+|+.. |-. -..--|||||
T Consensus 49 ls~~e~~~fwI~~~~--G~I~vg~~g---~~~pfl~~~-Dp~--~~~v~yvGft 94 (102)
T PF12248_consen 49 LSPSEFRMFWISWRD--GTIRVGRGG---EDEPFLEWT-DPE--PIPVNYVGFT 94 (102)
T ss_pred CCCCccEEEEEEECC--CEEEEEECC---CccEEEEEE-CCC--CCcccEEEEe
Confidence 466788999999766 557776642 446888765 222 2245699994
No 36
>PF14851 FAM176: FAM176 family
Probab=25.28 E-value=30 Score=28.42 Aligned_cols=24 Identities=4% Similarity=0.069 Sum_probs=15.8
Q ss_pred eeeeeehhhHHHHHHHhheeeeEE
Q 036537 168 KINIVGLLCKMCTCVEMIFVLYMY 191 (212)
Q Consensus 168 ~~~~~G~~~~~~~~~~~~~~l~~~ 191 (212)
+-++.||.+|....++++++-..+
T Consensus 24 LYFv~gVC~GLlLtLcllV~risc 47 (153)
T PF14851_consen 24 LYFVSGVCAGLLLTLCLLVIRISC 47 (153)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhee
Confidence 335777777775566666666666
No 37
>TIGR01478 STEVOR variant surface antigen, stevor family. This model represents the stevor branch of the rifin/stevor family (pfam02009) of predicted variant surface antigens as found in Plasmodium falciparum. This model is based on a set of stevor sequences kindly provided by Matt Berriman from the Sanger Center. This is a global model and assesses a penalty for incomplete sequence. Additional fragmentary sequences may be found with the fragment model and a cutoff of 8 bits.
Probab=24.43 E-value=12 Score=33.74 Aligned_cols=21 Identities=24% Similarity=0.507 Sum_probs=14.8
Q ss_pred HhheeeeEEEeeecCCCCCcc
Q 036537 183 EMIFVLYMYGFYKRIKIPPHN 203 (212)
Q Consensus 183 ~~~~~l~~~~~~~r~~~p~~~ 203 (212)
|.+..||+|..|||-..=|||
T Consensus 273 vvliiLYiWlyrrRK~swkhe 293 (295)
T TIGR01478 273 VVLIILYIWLYRRRKKSWKHE 293 (295)
T ss_pred HHHHHHHHHHHHhhccccccc
Confidence 566788999877776555554
No 38
>PF01299 Lamp: Lysosome-associated membrane glycoprotein (Lamp); InterPro: IPR002000 Lysosome-associated membrane glycoproteins (lamp) [] are integral membrane proteins, specific to lysosomes, and whose exact biological function is not yet clear. Structurally, the lamp proteins consist of two internally homologous lysosome-luminal domains separated by a proline-rich hinge region; at the C-terminal extremity there is a transmembrane region (TM) followed by a very short cytoplasmic tail (C). In each of the duplicated domains, there are two conserved disulphide bonds. This structure is schematically represented in the figure below. +-----+ +-----+ +-----+ +-----+ | | | | | | | | xCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxxxCxxxxxCxxxxxxxxxxxxCxxxxxCxxxxxxxx +--------------------------++Hinge++--------------------------++TM++C+ In mammals, there are two closely related types of lamp: lamp-1 and lamp-2, which form major components of the lysosome membrane. In chicken lamp-1 is known as LEP100. Also included in this entry is the macrophage protein CD68 (or macrosialin) [] is a heavily glycosylated integral membrane protein whose structure consists of a mucin-like domain followed by a proline-rich hinge; a single lamp-like domain; a transmembrane region and a short cytoplasmic tail. Similar to CD68, mammalian lamp-3, which is expressed in lymphoid organs, dendritic cells and in lung, contains all the C-terminal regions but lacks the N-terminal lamp-like region []. In a lamp-family protein from nematodes [] only the part C-terminal to the hinge is conserved. ; GO: 0016020 membrane
Probab=24.33 E-value=40 Score=30.14 Aligned_cols=27 Identities=11% Similarity=0.349 Sum_probs=12.8
Q ss_pred eeeehhhHHH-HHH-HhheeeeEEEeeec
Q 036537 170 NIVGLLCKMC-TCV-EMIFVLYMYGFYKR 196 (212)
Q Consensus 170 ~~~G~~~~~~-~~~-~~~~~l~~~~~~~r 196 (212)
.++-+++|++ ++| +.+++.|++.|||+
T Consensus 271 ~~vPIaVG~~La~lvlivLiaYli~Rrr~ 299 (306)
T PF01299_consen 271 DLVPIAVGAALAGLVLIVLIAYLIGRRRS 299 (306)
T ss_pred chHHHHHHHHHHHHHHHHHHhheeEeccc
Confidence 3555555552 222 33344566655554
No 39
>KOG3514 consensus Neurexin III-alpha [Signal transduction mechanisms]
Probab=23.68 E-value=3.8e+02 Score=29.17 Aligned_cols=49 Identities=20% Similarity=0.341 Sum_probs=27.0
Q ss_pred ccccCCCCcEEEEEEEeCCc-cEEEEEEEECCCCcceeeeeeecCCCCCCCeEEEE
Q 036537 72 GINLKSGRPIKVQIYYDGLT-KMLYVYMAYSGDQLQKSMEKPIIMSETVPSSVYVG 126 (212)
Q Consensus 72 ~~~l~~G~~~~vwI~Yd~~s-~~L~V~l~~~~kp~~plLs~~vdLs~~l~~~v~VG 126 (212)
...|+|.++|+|-|.=|... +.|.| + ++-..+++...++| -|...+|+|
T Consensus 914 r~hlnDnrWHnV~I~rd~~~~HtL~v--D--~s~~t~~~~g~~~l--~l~g~LyiG 963 (1591)
T KOG3514|consen 914 RQHLNDNRWHNVLIYRDKTNTHTLKV--D--NSSTTQIIDGAVNL--DLKGKLYIG 963 (1591)
T ss_pred cCcCccccceeEEEEcCCCCceEEEe--c--CceEEEEecCcccc--ccccceecc
Confidence 45688889999999888432 34444 2 23334445443322 133455555
No 40
>PF07472 PA-IIL: Fucose-binding lectin II (PA-IIL); InterPro: IPR010907 This entry represents calcium-mediated lectins. Structures have been determined for both fucose-binding lectin II (PA-IIL) [] and mannose-specific lectin II (RS-IIL) []. These proteins have homologous structures, their monomers consisting of a 9-stranded beta sandwich with Greek-key topology. Each monomer contains two calcium ions that mediate an exceptionally high binding affinity to the monosaccharide ligand in a recognition mode unique among carbohydrate-protein interactions. In Pseudomonas aeruginosa, PA-IIL contributes to the pathogenic virulence of the bacterium, functioning as a tetramer when binding fucose []. In the plant pathogen Ralstonia solanacearum (Pseudomonas solanacearum), RS-IIL recognises fucose, but displays much higher affinity to mannose and fructose, which is opposite to the preference of PA-IIL. ; PDB: 2WRA_A 2WR9_C 1OUX_C 2VUC_B 1GZT_C 2BOJ_D 2JDM_D 2JDH_D 1W8F_D 1UZV_A ....
Probab=22.99 E-value=3.7e+02 Score=20.90 Aligned_cols=53 Identities=13% Similarity=0.259 Sum_probs=29.8
Q ss_pred EeCCccEEEEEEEECCCCcceeeeeeecCCCCCCCeEEEEEEeecCC----cccceEEEeEE
Q 036537 87 YDGLTKMLYVYMAYSGDQLQKSMEKPIIMSETVPSSVYVGFTAATGE----LSESHQLLDWT 144 (212)
Q Consensus 87 Yd~~s~~L~V~l~~~~kp~~plLs~~vdLs~~l~~~v~VGFSASTG~----~~q~h~I~sWs 144 (212)
|++.++.+.|.+....||. ++.+...+|.. +.+.|.-+|--+ ....--+|.|-
T Consensus 50 l~Sg~Gkv~i~v~~ngk~s-~l~~~q~~l~~----~~~~~ivgsEdGtD~DYND~ivvLnWp 106 (107)
T PF07472_consen 50 LNSGSGKVRIEVTANGKPS-KLRSSQNTLDG----KPYFGIVGSEDGTDNDYNDSIVVLNWP 106 (107)
T ss_dssp EE-TTSEEEEEEEETTEE--EEEEEEEEETT----TEEEEEEEEESSSSSSSBSEEEEEEES
T ss_pred EecCCCeEEEEEEeCCccc-cceeeeeeccC----ceeEEEEEcccCCCCCcccEEEEEecc
Confidence 5666666666666555554 35555555554 566665555432 45666777883
No 41
>smart00560 LamGL LamG-like jellyroll fold domain.
Probab=22.76 E-value=1.1e+02 Score=23.36 Aligned_cols=23 Identities=26% Similarity=0.307 Sum_probs=21.3
Q ss_pred CCcEEEEEEEeCCccEEEEEEEE
Q 036537 78 GRPIKVQIYYDGLTKMLYVYMAY 100 (212)
Q Consensus 78 G~~~~vwI~Yd~~s~~L~V~l~~ 100 (212)
|+.+++-+.||+.++.+++|++.
T Consensus 61 ~~W~hva~v~d~~~g~~~lYvnG 83 (133)
T smart00560 61 GVWVHLAGVYDGGAGKLSLYVNG 83 (133)
T ss_pred CCEEEEEEEEECCCCeEEEEECC
Confidence 88999999999999999999975
No 42
>PF10873 DUF2668: Protein of unknown function (DUF2668); InterPro: IPR022640 Members in this family of proteins are annotated as cysteine and tyrosine-rich protein 1, however currently no function is known [].
Probab=22.63 E-value=34 Score=28.04 Aligned_cols=24 Identities=13% Similarity=0.180 Sum_probs=11.8
Q ss_pred eeehhhHH----HHHHHhheeeeEEEee
Q 036537 171 IVGLLCKM----CTCVEMIFVLYMYGFY 194 (212)
Q Consensus 171 ~~G~~~~~----~~~~~~~~~l~~~~~~ 194 (212)
+.|++||+ +|+.+.+.-+.|++++
T Consensus 63 IaGIVfgiVfimgvva~i~icvCmc~kn 90 (155)
T PF10873_consen 63 IAGIVFGIVFIMGVVAGIAICVCMCMKN 90 (155)
T ss_pred eeeeehhhHHHHHHHHHHHHHHhhhhhc
Confidence 55555554 3333444455566553
No 43
>PTZ00370 STEVOR; Provisional
Probab=21.06 E-value=12 Score=33.82 Aligned_cols=21 Identities=19% Similarity=0.469 Sum_probs=14.3
Q ss_pred HhheeeeEEEeeecCCCCCcc
Q 036537 183 EMIFVLYMYGFYKRIKIPPHN 203 (212)
Q Consensus 183 ~~~~~l~~~~~~~r~~~p~~~ 203 (212)
|.+..||+|..|||-..=|||
T Consensus 269 vvliilYiwlyrrRK~swkhe 289 (296)
T PTZ00370 269 VVLIILYIWLYRRRKNSWKHE 289 (296)
T ss_pred HHHHHHHHHHHHhhcchhHHH
Confidence 566788999876665544554
No 44
>PF03302 VSP: Giardia variant-specific surface protein; InterPro: IPR005127 During infection, the intestinal protozoan parasite Giardia lamblia virus undergoes continuous antigenic variation which is determined by diversification of the parasite's major surface antigen, named VSP (variant surface protein).
Probab=20.59 E-value=46 Score=31.11 Aligned_cols=18 Identities=17% Similarity=0.183 Sum_probs=12.1
Q ss_pred eeeeeehhhHHHHHHHhh
Q 036537 168 KINIVGLLCKMCTCVEMI 185 (212)
Q Consensus 168 ~~~~~G~~~~~~~~~~~~ 185 (212)
.+.++|.++++.|||.++
T Consensus 366 tgaIaGIsvavvvvVggl 383 (397)
T PF03302_consen 366 TGAIAGISVAVVVVVGGL 383 (397)
T ss_pred ccceeeeeehhHHHHHHH
Confidence 457899988885555433
No 45
>cd00152 PTX Pentraxins are plasma proteins characterized by their pentameric discoid assembly and their Ca2+ dependent ligand binding, such as Serum amyloid P component (SAP) and C-reactive Protein (CRP), which are cytokine-inducible acute-phase proteins implicated in innate immunity. CRP binds to ligands containing phosphocholine, SAP binds to amyloid fibrils, DNA, chromatin, fibronectin, C4-binding proteins and glycosaminoglycans. "Long" pentraxins have N-terminal extensions to the common pentraxin domain; one group, the neuronal pentraxins, may be involved in synapse formation and remodeling, and they may also be able to form heteromultimers.
Probab=20.41 E-value=1.2e+02 Score=25.02 Aligned_cols=26 Identities=4% Similarity=0.095 Sum_probs=24.0
Q ss_pred cCCCCcEEEEEEEeCCccEEEEEEEE
Q 036537 75 LKSGRPIKVQIYYDGLTKMLYVYMAY 100 (212)
Q Consensus 75 l~~G~~~~vwI~Yd~~s~~L~V~l~~ 100 (212)
..+|+.+++-++||+.++.+.+|++.
T Consensus 87 ~~~g~W~hv~~t~d~~~g~~~lyvnG 112 (201)
T cd00152 87 ESDGAWHHICVTWESTSGIAELWVNG 112 (201)
T ss_pred CCCCCEEEEEEEEECCCCcEEEEECC
Confidence 47899999999999999999999986
No 46
>PHA03099 epidermal growth factor-like protein (EGF-like protein); Provisional
Probab=20.19 E-value=58 Score=26.28 Aligned_cols=30 Identities=30% Similarity=0.523 Sum_probs=17.5
Q ss_pred eeehhhHHHHHHHhheeeeEEEeeecCCCCCcc
Q 036537 171 IVGLLCKMCTCVEMIFVLYMYGFYKRIKIPPHN 203 (212)
Q Consensus 171 ~~G~~~~~~~~~~~~~~l~~~~~~~r~~~p~~~ 203 (212)
++|+.++. +++..+.+++.|.||.++|-|.
T Consensus 106 il~il~~i---~is~~~~~~yr~~r~~~~~~~~ 135 (139)
T PHA03099 106 IVLVLVGI---IITCCLLSVYRFTRRTKLPLQD 135 (139)
T ss_pred HHHHHHHH---HHHHHHHhhheeeecccCchhh
Confidence 44444444 3444556667777777777554
Done!