Query 029183
Match_columns 197
No_of_seqs 136 out of 1009
Neff 5.1
Searched_HMMs 46136
Date Fri Mar 29 08:50:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029183.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029183hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14368 LTP_2: Probable lipid 99.5 1.2E-15 2.6E-20 112.3 -0.1 83 17-102 14-96 (96)
2 cd04660 nsLTP_like nsLTP_like: 99.5 2.5E-14 5.4E-19 102.9 3.4 71 25-102 1-73 (73)
3 cd01960 nsLTP1 nsLTP1: Non-spe 99.5 3.7E-14 7.9E-19 104.9 3.8 71 24-97 2-78 (89)
4 cd00010 AAI_LTSS AAI_LTSS: Alp 99.4 7.1E-14 1.5E-18 96.6 3.5 62 32-95 1-63 (63)
5 cd01959 nsLTP2 nsLTP2: Non-spe 99.4 2.8E-13 6.1E-18 96.6 3.8 61 30-98 4-64 (66)
6 smart00499 AAI Plant lipid tra 99.1 1.7E-10 3.8E-15 80.2 4.2 73 25-102 1-79 (79)
7 PF00234 Tryp_alpha_amyl: Prot 98.6 6.1E-10 1.3E-14 81.5 -5.6 70 30-102 13-90 (90)
8 PF14547 Hydrophob_seed: Hydro 93.7 0.019 4.2E-07 43.0 0.1 76 25-103 2-85 (85)
9 cd01958 HPS_like HPS_like: Hyd 92.9 0.082 1.8E-06 39.8 2.4 75 25-102 4-85 (85)
10 cd00261 AAI_SS AAI_SS: Alpha-A 46.9 4.6 0.0001 30.3 -0.8 69 31-103 14-109 (110)
11 PF05283 MGC-24: Multi-glycosy 41.4 85 0.0018 26.8 6.0 22 175-196 161-183 (186)
12 PF15240 Pro-rich: Proline-ric 33.1 31 0.00068 29.3 2.0 12 1-12 1-13 (179)
13 PF05617 Prolamin_like: Prolam 28.0 46 0.00099 22.9 1.9 24 41-67 23-46 (70)
14 KOG0812 SNARE protein SED5/Syn 21.8 65 0.0014 29.6 2.1 22 173-194 286-307 (311)
No 1
>PF14368 LTP_2: Probable lipid transfer; PDB: 2RKN_A 1N89_A 1TUK_A.
Probab=99.52 E-value=1.2e-15 Score=112.29 Aligned_cols=83 Identities=41% Similarity=0.781 Sum_probs=49.4
Q ss_pred ccccccCchhhhccCccCChhhhcCCCCCCcHhHHHHHHhhhcCCCcccceeecccCCCcCCCCCCHHHHhhhcCcCCCC
Q 029183 17 DKAKDREECTNQLVGLSTCLPYVGGDAKAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPELGLNINVTLALGLPSVCHAP 96 (197)
Q Consensus 17 ~~aq~~~~C~~~l~~L~pClpYvtg~~~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~lg~~IN~trA~~LP~aCgi~ 96 (197)
..++...+|...+....+|+.|+.+. ..|+++||+++|++++.+..|||.++++.. ..+++||.+|++.||++||++
T Consensus 14 ~~~~~~~~c~~~l~~c~~~~~~~~~~-~~Ps~~CC~~l~~~~~~~~~ClC~~~~~~~--~~~~~in~~~a~~Lp~~Cg~~ 90 (96)
T PF14368_consen 14 PAAACCCSCANSLLPCCPCLCYVTGG-PAPSAACCSALKSVVQADPPCLCQLLNSPG--APGFGINVTRALALPAACGVP 90 (96)
T ss_dssp ----BTTB-HCCCCHH--HHHHHCC------HHHHHHHCC----HCCHHHCCCC-CC--HCHHCCTCHHHHHHHHHCTSS
T ss_pred cCCCCcchhHHHHhccccchhccCCC-CCCCHHHHHHHHHhccCCCCCHHHhcCccc--cccCCcCHHHHHHHHHHcCCC
Confidence 34445667866543333448998854 789999999999998889999999988532 135679999999999999999
Q ss_pred CCCCCC
Q 029183 97 ANVSQC 102 (197)
Q Consensus 97 ~p~s~C 102 (197)
.+.++|
T Consensus 91 ~~~~~C 96 (96)
T PF14368_consen 91 VPPSKC 96 (96)
T ss_dssp -S----
T ss_pred CCCCCC
Confidence 865676
No 2
>cd04660 nsLTP_like nsLTP_like: Non-specific lipid-transfer protein (nsLTP)-like subfamily; composed of predominantly uncharacterized proteins with similarity to nsLTPs, including Medicago truncatula MtN5, the root-specific Phaseolus vulgaris PVR3, Antirrhinum majus FIL1, and Lilium longiflorum LIM3. Plant nsLTPs are small, soluble proteins that facilitate the transfer of fatty acids, phospholipids, glycolipids, and steroids between membranes. The MtN5 gene is induced during root nodule development. FIL1 is thought to be important in petal and stamen formation. The LIM3 gene is induced during the early prophase stage of meiosis in lily microsporocytes.
Probab=99.47 E-value=2.5e-14 Score=102.86 Aligned_cols=71 Identities=35% Similarity=0.702 Sum_probs=57.5
Q ss_pred hhhhccCccCChhhhcCCC--CCCcHhHHHHHHhhhcCCCcccceeecccCCCcCCCCCCHHHHhhhcCcCCCCCCCCCC
Q 029183 25 CTNQLVGLSTCLPYVGGDA--KAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPELGLNINVTLALGLPSVCHAPANVSQC 102 (197)
Q Consensus 25 C~~~l~~L~pClpYvtg~~--~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~lg~~IN~trA~~LP~aCgi~~p~s~C 102 (197)
|+..+..|.+|++|+++++ ..|+..||+++|++ +..|+|.+++. +.+. .||.++|+.||++||++++.++|
T Consensus 1 C~~~~~~L~~C~~yl~~~~~~~~Ps~~CC~~vk~~---~~~C~C~~~~~---~~~~-~i~~~~a~~Lp~~Cgv~~p~~~C 73 (73)
T cd04660 1 CNMDLDLLAECQPYVTGPNPPPPPSRECCAALRRA---DLPCLCRYKTS---LVLQ-IIDPDKAVYLPAKCGLPLPPSSC 73 (73)
T ss_pred CCCCHHHHHHHHHHHcCCCCCCCCCHHHHHHHHcC---CcCCEeeccCC---Cccc-ccCHHHHHHHHHHcCCCCCCCCC
Confidence 5566678899999999865 46999999999985 66799998763 2233 49999999999999999854776
No 3
>cd01960 nsLTP1 nsLTP1: Non-specific lipid-transfer protein type 1 (nsLTP1) subfamily; Plant nsLTPs are small, soluble proteins that facilitate the transfer of fatty acids, phospholipids, glycolipids, and steroids between membranes. In addition to lipid transport and assembly, nsLTPs also play a key role in the defense of plants against pathogens. There are two closely-related types of nsLTPs, types 1 and 2, which differ in protein sequence, molecular weight, and biological properties. nsLTPs contain an internal hydrophobic cavity, which serves as the binding site for lipids. The hydrophobic cavity accommodates various fatty acid ligands containing from ten to 18 carbon atoms. In general, the cavity is larger in nsLTP1 than in nsLTP2. nsLTP1 proteins are located in extracellular layers and in vacuolar structures. They may be involved in the formation of cutin layers on plant surfaces by transporting cutin monomers. Many nsLTP1 proteins have been characterized as allergens in humans.
Probab=99.46 E-value=3.7e-14 Score=104.93 Aligned_cols=71 Identities=32% Similarity=0.694 Sum_probs=58.4
Q ss_pred chhhhccCccCChhhhcCCCCCCcHhHHHHHHhhhcC-----CCcccceeecccCCCcCCCC-CCHHHHhhhcCcCCCCC
Q 029183 24 ECTNQLVGLSTCLPYVGGDAKAPTPDCCSGLKQVLKN-----DKKCLCVIIRDRNDPELGLN-INVTLALGLPSVCHAPA 97 (197)
Q Consensus 24 ~C~~~l~~L~pClpYvtg~~~~PSs~CCsaLk~v~~~-----~~~CLC~~Ik~~~~p~lg~~-IN~trA~~LP~aCgi~~ 97 (197)
+|..++..|.||++|+++++..|+++||++++++++. +..|+|..+++.. .++. ||.+||++||++||++.
T Consensus 2 ~C~~v~~~l~~C~~y~~g~~~~Ps~~CC~~v~~l~~~~~t~~~~~~~C~C~~~~~---~~~~~i~~~~a~~LP~~C~v~~ 78 (89)
T cd01960 2 SCGQVTSLLAPCLGYLTGGGPAPSPACCSGVKSLNGLAKTTADRQAACNCLKSAA---AGISGLNPGRAAGLPGKCGVSI 78 (89)
T ss_pred CHHHHHhhHHhHHHHHhCCCCCCChHHhhhhHHHhhccCCCCchhhhhhcccccc---cccCCCCHHHHHhChHhcccCC
Confidence 6899999999999999988778999999999998765 3356666566532 2443 99999999999999986
No 4
>cd00010 AAI_LTSS AAI_LTSS: Alpha-Amylase Inhibitors (AAI), Lipid Transfer (LT) and Seed Storage (SS) Protein family; a protein family unique to higher plants that includes cereal-type alpha-amylase inhibitors, lipid transfer proteins, seed storage proteins, and similar proteins. Proteins in this family are known to play important roles, in defending plants from insects and pathogens, lipid transport between intracellular membranes, and nutrient storage. Many proteins of this family have been identified as allergens in humans. These proteins contain a common pattern of eight cysteines that form four disulfide bridges.
Probab=99.44 E-value=7.1e-14 Score=96.61 Aligned_cols=62 Identities=48% Similarity=0.937 Sum_probs=52.9
Q ss_pred ccCChhhhcCCCCCCcHhHHHHHHhhhcCCCcccceeecccCCCcCCCCC-CHHHHhhhcCcCCC
Q 029183 32 LSTCLPYVGGDAKAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPELGLNI-NVTLALGLPSVCHA 95 (197)
Q Consensus 32 L~pClpYvtg~~~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~lg~~I-N~trA~~LP~aCgi 95 (197)
|.||++|++++...|+++||++++++.+.++.|+|.++++.... ...+ |.++++.||++||+
T Consensus 1 L~~C~~y~~~~~~~Ps~~CC~~l~~~~~~~~~ClC~~~~~~~~~--~~~~~~~~~a~~LP~~Cgv 63 (63)
T cd00010 1 LAPCLSYLTGGATAPPSDCCSGLKSVVKSDPKCLCAALNGPGAS--LLGLKNATRALALPAACGL 63 (63)
T ss_pred CcchHHHHcCCCCCCChHHHHHHHHHHhcChhhHHHHHcCcccc--ccCcccHHHHHhchHhcCC
Confidence 57999999988778999999999999988999999999864321 2234 79999999999996
No 5
>cd01959 nsLTP2 nsLTP2: Non-specific lipid-transfer protein type 2 (nsLTP2) subfamily; Plant nsLTPs are small, soluble proteins that facilitate the transfer of fatty acids, phospholipids, glycolipids, and steroids between membranes. In addition to lipid transport and assembly, nsLTPs also play a key role in the defense of plants against pathogens. There are two closely-related types of nsLTPs, types 1 and 2, which differ in protein sequence, molecular weight, and biological properties. nsLTPs contain an internal hydrophobic cavity, which serves as the binding site for lipids. nsLTP2 can bind lipids and sterols. Structure studies of rice nsLTPs show that the plasticity of the hydrophobic cavity is an important factor in ligand binding. The flexibility of the sLTP2 cavity allows its binding to rigid sterol molecules, whereas nsLTP1 cannot bind sterols despite its larger cavity size. The resulting nsLTP2/sterol complexes may bind to receptors that trigger defense responses. nsLTP2 gene exp
Probab=99.39 E-value=2.8e-13 Score=96.64 Aligned_cols=61 Identities=33% Similarity=0.708 Sum_probs=53.6
Q ss_pred cCccCChhhhcCCCCCCcHhHHHHHHhhhcCCCcccceeecccCCCcCCCCCCHHHHhhhcCcCCCCCC
Q 029183 30 VGLSTCLPYVGGDAKAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPELGLNINVTLALGLPSVCHAPAN 98 (197)
Q Consensus 30 ~~L~pClpYvtg~~~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~lg~~IN~trA~~LP~aCgi~~p 98 (197)
.+|.+|++|++++ ..|+.+||+.||+ +..|||.|+++ |.++..||.++|++||++||+++|
T Consensus 4 ~~L~~C~~ai~~~-~~Ps~~CC~~Lk~----~~~CLC~y~~~---p~l~~~i~~~~A~~l~~~Cgv~~P 64 (66)
T cd01959 4 TQLSPCLPAILGG-SPPSAACCAKLKE----QQSCLCQYAKN---PSLKQYVNSPNARKVLAACGVPYP 64 (66)
T ss_pred hhcccCHHHHhCC-CCCCHHHHHHHhc----CCCCeeeeecC---ccHHhhcCcHHHHHHHHHcCCCCC
Confidence 4799999999975 6799999999999 55899999874 667667999999999999999975
No 6
>smart00499 AAI Plant lipid transfer protein / seed storage protein / trypsin-alpha amylase inhibitor domain family.
Probab=99.05 E-value=1.7e-10 Score=80.21 Aligned_cols=73 Identities=33% Similarity=0.788 Sum_probs=58.7
Q ss_pred hhhhccCccCChhhhcCC--CCCCcHhHHHHHHhhhcCCCcccceeecccCCCcCCC----CCCHHHHhhhcCcCCCCCC
Q 029183 25 CTNQLVGLSTCLPYVGGD--AKAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPELGL----NINVTLALGLPSVCHAPAN 98 (197)
Q Consensus 25 C~~~l~~L~pClpYvtg~--~~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~lg~----~IN~trA~~LP~aCgi~~p 98 (197)
|...+..+.+|++|+++. ...|+.+||++|+++. +..|+|.+++.... .. .++..+|..||+.||+..+
T Consensus 1 C~~~~~~~~~c~~~~~~~~~~~~p~~~CC~~l~~~~--~~~C~C~~~~~~~~---~~~~~~~~~~~~a~~lp~~C~~~~~ 75 (79)
T smart00499 1 CGQVLLQLAPCLSYLTGGSPGAPPSQQCCSQLRGLN--SAQCRCLALRAAVL---GILEIPGVNAQNAASLPSACGVPPP 75 (79)
T ss_pred ChhhhhhHHhhHHHHcCCCCCCCCchHHHHHHHHhc--ccCCcchhhhcccc---cccchhhhhHHHHHhhHHhcCCCCC
Confidence 566677778999999986 4678999999999986 78899999875422 22 2699999999999999876
Q ss_pred CCCC
Q 029183 99 VSQC 102 (197)
Q Consensus 99 ~s~C 102 (197)
.+.|
T Consensus 76 ~~~C 79 (79)
T smart00499 76 YTDC 79 (79)
T ss_pred CCCC
Confidence 4555
No 7
>PF00234 Tryp_alpha_amyl: Protease inhibitor/seed storage/LTP family This is a small subfamily; InterPro: IPR003612 This domain is found is several proteins, including plant lipid transfer proteins [], seed storage proteins [] and trypsin-alpha amylase inhibitors [, ]. The domain forms a four-helical bundle in a right-handed superhelix with a folded leaf topology, which is stabilised by disulphide bonds, and which has an internal cavity. More information about this protein can be found at Protein of the Month: alpha-Amylase [].; PDB: 1BFA_A 1BEA_A 1MID_A 1BE2_A 1LIP_A 3GSH_A 1JTB_A 1UVC_B 1BV2_A 1UVB_A ....
Probab=98.61 E-value=6.1e-10 Score=81.49 Aligned_cols=70 Identities=36% Similarity=0.792 Sum_probs=55.1
Q ss_pred cCccCChhhhcCCCCCCcHhHHHHHHhhhcCCCcccceeecccCCCcC--------CCCCCHHHHhhhcCcCCCCCCCCC
Q 029183 30 VGLSTCLPYVGGDAKAPTPDCCSGLKQVLKNDKKCLCVIIRDRNDPEL--------GLNINVTLALGLPSVCHAPANVSQ 101 (197)
Q Consensus 30 ~~L~pClpYvtg~~~~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~l--------g~~IN~trA~~LP~aCgi~~p~s~ 101 (197)
..+.+|+.|++++...|+..||++|+++ ++.|.|..|+......+ ...++..+|..||+.||++.+.++
T Consensus 13 ~~l~~c~~~~~~~~~~~~~~CC~~L~~l---~~~C~C~~i~~~~~~~~~q~~~~~~~~~~~~~~a~~LP~~C~v~~~~~~ 89 (90)
T PF00234_consen 13 VRLSPCLPYLQGGCQQPSQQCCQQLRQL---DPQCRCEAIRQMVRQVIQQQQQGGQEMQIMAQRAQNLPSMCNVSPPYTD 89 (90)
T ss_dssp SHHHGGHHHHTTSSSHHHHHHHHHHHHH---HHHHHHHHHHHHHHHSHHCTSTCSHHHHHHHHHHHHHHHHTTSSSSSS-
T ss_pred ccccccHHHHhcccccchHHHhHHHHHH---hHHhhCHHHHHHHHhhhhhhhhhHHHHHHHHHHHHHHHHHCCCCCCCCC
Confidence 3488999999987667999999999999 88999999885321100 025899999999999999986545
Q ss_pred C
Q 029183 102 C 102 (197)
Q Consensus 102 C 102 (197)
|
T Consensus 90 C 90 (90)
T PF00234_consen 90 C 90 (90)
T ss_dssp G
T ss_pred C
Confidence 5
No 8
>PF14547 Hydrophob_seed: Hydrophobic seed protein
Probab=93.72 E-value=0.019 Score=43.01 Aligned_cols=76 Identities=30% Similarity=0.632 Sum_probs=50.3
Q ss_pred hhhhccCccCChhhhc----CCCCCCcHhHHHHHHhhhcCC-CcccceeecccCCCcCC-CCCCHHHHh-hhcCcCCCCC
Q 029183 25 CTNQLVGLSTCLPYVG----GDAKAPTPDCCSGLKQVLKND-KKCLCVIIRDRNDPELG-LNINVTLAL-GLPSVCHAPA 97 (197)
Q Consensus 25 C~~~l~~L~pClpYvt----g~~~~PSs~CCsaLk~v~~~~-~~CLC~~Ik~~~~p~lg-~~IN~trA~-~LP~aCgi~~ 97 (197)
|-.....|.-|...+. .-+..+..+||.-++.+.+.+ ..|||..+|.. -++ +.+|....+ .|-..||-..
T Consensus 2 CP~d~lkLgvC~~vL~l~~~~~g~~~~~~CC~li~gL~d~~AA~CLC~aika~---vlg~i~~~ipv~l~~lln~CGk~~ 78 (85)
T PF14547_consen 2 CPRDALKLGVCANVLGLVNLVIGNPPRQPCCSLIAGLADLDAAVCLCTAIKAN---VLGLINVNIPVALNLLLNACGKTV 78 (85)
T ss_pred CCCcchhhhhhhhhhhhhccccCCCCCCCcChHHhCcccchHHHHHHHHHhhh---cccccccccccHHHHHHHHhCCcC
Confidence 4333446777888772 112447888999999998776 57999998842 245 444444444 4678899876
Q ss_pred C-CCCCC
Q 029183 98 N-VSQCP 103 (197)
Q Consensus 98 p-~s~C~ 103 (197)
| .++|.
T Consensus 79 p~gf~C~ 85 (85)
T PF14547_consen 79 PSGFTCP 85 (85)
T ss_pred cCCCcCC
Confidence 4 56774
No 9
>cd01958 HPS_like HPS_like: Hydrophobic Protein from Soybean (HPS)-like subfamily; composed of proteins with similarity to HPS, a small hydrophobic protein with unknown function related to cereal-type alpha-amylase inhibitors and lipid transfer proteins. In addition to HPS, members of this subfamily include a hybrid proline-rich protein (HyPRP) from maize, a dark-inducible protein (LeDI-2) from Lithospermum erythrorhizon, maize ZRP3 protein, and rice RcC3 protein. HyPRP is an embryo-specific protein that contains an N-terminal proline-rich domain and a C-terminal HPS-like cysteine-rich domain. It has been suggested that HyPRP may be involved in the stability and defense of the developing embryo. LeDI-2 is a root-specific protein that may be involved in regulating the biosynthesis of shikonin derivatives in L. erythrorhizon. Maize ZRP3 and rice RcC3 are root-specific proteins whose functions are yet to be determined. It has been reported that ZRP3 largely accumulates in a distinct subset
Probab=92.88 E-value=0.082 Score=39.76 Aligned_cols=75 Identities=27% Similarity=0.554 Sum_probs=48.4
Q ss_pred hhhhccCccCChhhhcC----CCCCCcHhHHHHHHhhhcCC-CcccceeecccCCCcCCCCCCHHHHhhh-cCcCCCCCC
Q 029183 25 CTNQLVGLSTCLPYVGG----DAKAPTPDCCSGLKQVLKND-KKCLCVIIRDRNDPELGLNINVTLALGL-PSVCHAPAN 98 (197)
Q Consensus 25 C~~~l~~L~pClpYvtg----~~~~PSs~CCsaLk~v~~~~-~~CLC~~Ik~~~~p~lg~~IN~trA~~L-P~aCgi~~p 98 (197)
|-.....|.-|..-+.. .+..|..+||.-++.+.+.+ ..|+|..||.. .+++.+|....+.+ -+.||-..|
T Consensus 4 CP~dalkLgvCanvL~l~~~~~g~~~~~~CC~ll~GL~dldAA~CLCtaikan---~lgi~~~~pv~l~llln~CGk~~P 80 (85)
T cd01958 4 CPRDALKLGVCANVLGLSLLLLGTPAVQPCCPLIGGLADLDAAVCLCTAIKAN---ILGISINIPVALSLLLNSCGRNVP 80 (85)
T ss_pred CCcchHHhchhHhhhhccccccCCCccchHHHHHcCchhhheeeeeeeeeecc---ccCcccccChhHHHHHHHHcCcCC
Confidence 43333345566665532 12457789999999998886 57999999842 34665555555544 567998774
Q ss_pred -CCCC
Q 029183 99 -VSQC 102 (197)
Q Consensus 99 -~s~C 102 (197)
.++|
T Consensus 81 ~gf~C 85 (85)
T cd01958 81 PGFTC 85 (85)
T ss_pred CCCcC
Confidence 4455
No 10
>cd00261 AAI_SS AAI_SS: Alpha-Amylase Inhibitors (AAIs) and Seed Storage (SS) Protein subfamily; composed of cereal-type AAIs and SS proteins. They are mainly present in the seeds of a variety of plants. AAIs play an important role in the natural defenses of plants against insects and pathogens such as fungi, bacteria and viruses. AAIs impede the digestion of plant starch and proteins by inhibiting digestive alpha-amylases and proteinases. Also included in this subfamily are SS proteins such as 2S albumin, gamma-gliadin, napin, and prolamin. These AAIs and SS proteins are also known allergens in humans.
Probab=46.91 E-value=4.6 Score=30.32 Aligned_cols=69 Identities=26% Similarity=0.573 Sum_probs=44.4
Q ss_pred CccCChhhhcCC---CC-----------CCcHhHHHHHHhhhcCCCcccceeecccCCCcC-----------C--CCCCH
Q 029183 31 GLSTCLPYVGGD---AK-----------APTPDCCSGLKQVLKNDKKCLCVIIRDRNDPEL-----------G--LNINV 83 (197)
Q Consensus 31 ~L~pClpYvtg~---~~-----------~PSs~CCsaLk~v~~~~~~CLC~~Ik~~~~p~l-----------g--~~IN~ 83 (197)
.|.+|..|+.-. .. .....||.-++.+ +..|.|..|........ + ...-.
T Consensus 14 ~L~~C~~yl~qq~~~~~~~~~~~~~~~~~~~qqCCqqL~~i---~~qcrC~al~~~~~~~~~~~~~~~~~~~~~~~~~~~ 90 (110)
T cd00261 14 PLNSCREYLRQQCSGVGGPPVWPQQSCEVLRQQCCQQLAQI---PEQCRCEALRQMVQGVIQQQQQQQEQQQGQEVERMR 90 (110)
T ss_pred cCcHHHHHHHHhccCCCCCCCcCccccHHHHHHHHHHHHhC---cHhhhHHHHHHHHHHHHHhhhccccccCcChHHHHH
Confidence 577899998622 11 1236799999998 78899998863211000 0 12334
Q ss_pred HHHhhhcCcCCCCCCCCCCC
Q 029183 84 TLALGLPSVCHAPANVSQCP 103 (197)
Q Consensus 84 trA~~LP~aCgi~~p~s~C~ 103 (197)
..|..||..||+.. ...|.
T Consensus 91 ~~a~~Lp~~C~~~~-~~~C~ 109 (110)
T cd00261 91 QAAQNLPSMCNLYP-PPYCP 109 (110)
T ss_pred HHHHhhchhcCCCC-CCCCC
Confidence 57889999999985 23564
No 11
>PF05283 MGC-24: Multi-glycosylated core protein 24 (MGC-24); InterPro: IPR007947 CD164 is a mucin-like receptor, or sialomucin, with specificity in receptor/ ligand interactions that depends on the structural characteristics of the mucin-like receptor. Its functions include mediating, or regulating, haematopoietic progenitor cell adhesion and the negative regulation of their growth and/or-differentiation. It exists in the native state as a disulphide- linked homodimer of two 80-85kDa subunits. It is usually expressed by CD34+ and CD341o/- haematopoietic stem cells and associated microenvironmental cells. It contains, in its extracellular region, two mucin domains (I and II) linked by a non-mucin domain, which has been predicted to contain intra- disulphide bridges. This receptor may play a key role in haematopoiesis by facilitating the adhesion of human CD34+ cells to bone marrow stroma and by negatively regulating CD34+ CD341o/- haematopoietic progenitor cell proliferation. These effects involve the CD164 class I and/or II epitopes recognised by the monoclonal antibodies (mAbs) 105A5 and 103B2/9E10. These epitopes are carbohydrate-dependent and are located on the N-terminal mucin domain I [, ]. It has been found that murine MGC-24v and rat endolyn share significant sequence similarities with human CD164. However, CD164 lacks the consensus glycosaminoglycan (GAG)-attachment site found in MGC-24; it is possible that GAG-association is responsible for the high molecular weight of the epithelial-derived MGC-24 glycoprotein []. Genomic structure studies have placed CD164 within the mucin-subgroup that comprises multiple exons, and demonstrate the diverse chromosomal distribution of this family of molecules. Molecules with such multiple exons may have sophisticated regulatory mechanisms that involve not only post-translational modifications of the oligosaccharide side chains, but also differential exon usage. Although differences in the intron and exon sizes are seen between the mouse and human genes, the predicted proteins are similar in size and structure, maintaining functionally important motifs that regulate cell proliferation or subcellular distribution []. CD164 is a gene whose expression depends on differential usage of poly- adenylation sites within the 3'-UTR. The conserved distribution of the 3.2- and 1.2-kb CD164 transcripts between mouse and human suggests that (i) a mechanism may exist to regulate tissue-specific polyadenylation, and (ii) differences in polyadenylation are important for the expression and function of CD164 in different tissues. Two other aspects of the structure of CD164 are of particular interest. First, it shares one of several conserved features of a cytokine-binding pocket - in this respect, it is notable that evidence exists for a class of cell-surface sialomucin modulators that directly interact with growth factor receptors to regulate their response to physiological ligands. Second, its cytoplasmic tail contains a C-terminal YHTL motif found in many endocytic membrane proteins or receptors. These Tyr-based motifs bind to adaptor proteins, which mediate the sorting of membrane proteins into transport vesicles from the plasma membrane to the endosomes, and between intracellular compartments.
Probab=41.44 E-value=85 Score=26.77 Aligned_cols=22 Identities=27% Similarity=0.608 Sum_probs=12.7
Q ss_pred chhhH-HHHHHHHHHHHhhheec
Q 029183 175 NRWSG-LEIVSGVVLFHVYLYKI 196 (197)
Q Consensus 175 ~~~~~-~~~~~~~~~~~~~~~~~ 196 (197)
-..+| +=+++|++-+.||+||.
T Consensus 161 ~SFiGGIVL~LGv~aI~ff~~KF 183 (186)
T PF05283_consen 161 ASFIGGIVLTLGVLAIIFFLYKF 183 (186)
T ss_pred hhhhhHHHHHHHHHHHHHHHhhh
Confidence 34444 55556655567777764
No 12
>PF15240 Pro-rich: Proline-rich
Probab=33.06 E-value=31 Score=29.31 Aligned_cols=12 Identities=25% Similarity=0.545 Sum_probs=6.5
Q ss_pred CHHHHH-HHHHHh
Q 029183 1 MLVIVL-MMISSS 12 (197)
Q Consensus 1 ~~~~l~-~~lv~~ 12 (197)
|++||| ++||++
T Consensus 1 MLlVLLSvALLAL 13 (179)
T PF15240_consen 1 MLLVLLSVALLAL 13 (179)
T ss_pred ChhHHHHHHHHHh
Confidence 666664 444554
No 13
>PF05617 Prolamin_like: Prolamin-like; InterPro: IPR008502 This entry consists of several proteins of unknown function found exclusively in Arabidopsis thaliana.
Probab=27.96 E-value=46 Score=22.90 Aligned_cols=24 Identities=29% Similarity=0.814 Sum_probs=18.7
Q ss_pred CCCCCCcHhHHHHHHhhhcCCCcccce
Q 029183 41 GDAKAPTPDCCSGLKQVLKNDKKCLCV 67 (197)
Q Consensus 41 g~~~~PSs~CCsaLk~v~~~~~~CLC~ 67 (197)
|+....+.+||.++..+ ...|.=.
T Consensus 23 g~~~~i~~~CC~~i~~~---g~~C~~~ 46 (70)
T PF05617_consen 23 GNKKNIGPECCKAINKM---GKDCHPA 46 (70)
T ss_pred CCCCCCChHHHHHHHHH---hHhHHHH
Confidence 44367999999999997 6777766
No 14
>KOG0812 consensus SNARE protein SED5/Syntaxin 5 [Intracellular trafficking, secretion, and vesicular transport]
Probab=21.81 E-value=65 Score=29.56 Aligned_cols=22 Identities=23% Similarity=0.514 Sum_probs=16.8
Q ss_pred ccchhhHHHHHHHHHHHHhhhe
Q 029183 173 IGNRWSGLEIVSGVVLFHVYLY 194 (197)
Q Consensus 173 ~~~~~~~~~~~~~~~~~~~~~~ 194 (197)
..+|||-+.++.+|.+|.|+|.
T Consensus 286 SSNRwLmvkiF~i~ivFflvfv 307 (311)
T KOG0812|consen 286 SSNRWLMVKIFGILIVFFLVFV 307 (311)
T ss_pred ccchHHHHHHHHHHHHHHHHHH
Confidence 3589999999888777766654
Done!