>gi|357474035|ref|XP_003607302.1| Seed specific protein Bn15D18B [Medicago truncatula] gi|355508357|gb|AES89499.1| Seed specific protein Bn15D18B [Medicago truncatula]
Score = 102 (41.0 bits), Expect = 1.1e-05, P = 1.1e-05
Identities = 32/111 (28%), Positives = 51/111 (45%)
Query: 1 MAVIVGTLIFDNLQVAAQCGGSIPQLIA------QCSQFVKIEGPKVPPSPGCCTAVKGA 54
+AV+V ++ +++ AQ GG+ PQL A C ++ P PP P CC +K
Sbjct: 7 LAVVVAVVVLYSVEATAQ-GGN-PQLTACLQKLLPCQPYIHSLNP--PPPPSCCGPMKEI 62
Query: 55 ---DIPCVC-GLVTREVEKIISM--EKVVFVARKCGLTIKPGLKCGSYTVP 99
D PC+C EV K +++ E + + + CG+ L C P
Sbjct: 63 VEKDAPCLCIAFNNPEVLKALNLTKENALLLPKACGVNPDVSL-CSKIATP 112
Score = 88 (36.0 bits), Expect = 0.00035, P = 0.00035
Identities = 34/112 (30%), Positives = 53/112 (47%)
Query: 1 MAVIVGTLIFD--NLQVAAQCGGS-IPQLIAQ---CSQFVKIEGPKVPPSPGCCTAVKGA 54
+AV + +L+ +++ A +CG I Q A C K KVPP CC V GA
Sbjct: 7 VAVALMSLLISLASVEAAGECGRMPINQAAASLSPCLPATKNPRGKVPPV--CCAKV-GA 63
Query: 55 DI---P-CVCGLVTREVEKIISMEK--VVFVARKCGLTIKP-GLKCGSYTVP 99
I P C+C ++ + K + + V ++C + +P G +CG Y VP
Sbjct: 64 LIRTNPRCLCAVMLSPLAKKAGINPGIAIGVPKRCNIRNRPAGKRCGRYIVP 115
Parameters:
V=100
filter=SEG
E=0.001
ctxfactor=1.00
Query ----- As Used ----- ----- Computed ----
Frame MatID Matrix name Lambda K H Lambda K H
+0 0 BLOSUM62 0.324 0.140 0.441 same same same
Q=9,R=2 0.244 0.0300 0.180 n/a n/a n/a
Query
Frame MatID Length Eff.Length E S W T X E2 S2
+0 0 104 104 0.00091 102 3 11 22 0.39 30
29 0.50 31
Statistics:
Database: /share/blast/go-seqdb.fasta
Title: go_20130330-seqdb.fasta
Posted: 5:47:42 AM PDT Apr 1, 2013
Created: 5:47:42 AM PDT Apr 1, 2013
Format: XDF-1
# of letters in database: 169,044,731
# of sequences in database: 368,745
# of database sequences satisfying E: 9
No. of states in DFA: 470 (50 KB)
Total size of DFA: 97 KB (2071 KB)
Time to generate neighborhood: 0.00u 0.00s 0.00t Elapsed: 00:00:00
No. of threads or processors used: 24
Search cpu time: 10.27u 0.10s 10.37t Elapsed: 00:00:01
Total cpu time: 10.27u 0.10s 10.37t Elapsed: 00:00:01
Start: Tue May 21 03:37:17 2013 End: Tue May 21 03:37:18 2013
>gnl|CDD|240018 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
Score = 67.8 bits (166), Expect = 1e-16
Identities = 28/71 (39%), Positives = 41/71 (57%), Gaps = 1/71 (1%)
Query: 19 CGGSIPQLIAQCSQFVKIEGPKVPPSPGCCTAVKGADIPCVCGLVTREVEKIISMEKVVF 78
C + L+A+C +V P PPS CC A++ AD+PC+C T V +II +K V+
Sbjct: 1 CNMDL-DLLAECQPYVTGPNPPPPPSRECCAALRRADLPCLCRYKTSLVLQIIDPDKAVY 59
Query: 79 VARKCGLTIKP 89
+ KCGL + P
Sbjct: 60 LPAKCGLPLPP 70
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. Length = 73
>gnl|CDD|222713 pfam14368, LTP_2, Probable lipid transfer
Score = 49.4 bits (118), Expect = 3e-09
Identities = 29/98 (29%), Positives = 42/98 (42%), Gaps = 11/98 (11%)
Query: 1 MAVIVGTLIFDNLQVAAQCGGSIPQLIAQCSQFVKIEGPKVPPSPGCCTAVKGA---DIP 57
+ + AA C S+ + C PSP CC A+K A D+P
Sbjct: 4 VLLASAAAAPPAPASAASCADSLLPCLGYCYV-----NGTAAPSPACCAALKAAVKADVP 58
Query: 58 CVCGLVTREVEKI--ISMEKVVFVARKCGLTIKPGLKC 93
C+C LVT + I++ + V + + CGLT P KC
Sbjct: 59 CLCDLVTSPLAAGFGINLTRAVALPKACGLTSPP-SKC 95
The members of this family are probably involved in lipid transfer. The family has several highly conserved cysteines, paired in various ways. Length = 95
AAI_SS AAI_SS: Alpha-Amylase Inhibitors (AAIs) and
84.64
>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.
>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.
>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
>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.
>smart00499 AAI Plant lipid transfer protein / seed storage protein / trypsin-alpha amylase inhibitor domain family
Probab=99.32 E-value=4.7e-12 Score=76.24 Aligned_cols=73 Identities=27% Similarity=0.652 Sum_probs=59.1
Q ss_pred CcCchHHHHhhcHHHHhhcCCCCCCChhhHHHHHcC-CccccccccccccccC-----CCHHHHHHHHhhcCCCCCCCCC
Q 047652 19 CGGSIPQLIAQCSQFVKIEGPKVPPSPGCCTAVKGA-DIPCVCGLVTREVEKI-----ISMEKVVFVARKCGLTIKPGLK 92 (104)
Q Consensus 19 C~~~~~~l~~~C~~~l~~~~~~~~Ps~~CC~~vk~~-~~~ClC~~~~~~~~~~-----in~~~a~~lp~~Cg~~~p~~~~ 92 (104)
|......+ .+|.+|+++..+...|+.+||++++.+ +..|+|..++...... ++..++..||+.||+..+. +.
T Consensus 1 C~~~~~~~-~~c~~~~~~~~~~~~p~~~CC~~l~~~~~~~C~C~~~~~~~~~~~~~~~~~~~~a~~lp~~C~~~~~~-~~ 78 (79)
T smart00499 1 CGQVLLQL-APCLSYLTGGSPGAPPSQQCCSQLRGLNSAQCRCLALRAAVLGILEIPGVNAQNAASLPSACGVPPPY-TD 78 (79)
T ss_pred ChhhhhhH-HhhHHHHcCCCCCCCCchHHHHHHHHhcccCCcchhhhcccccccchhhhhHHHHHhhHHhcCCCCCC-CC
Confidence 55666677 699999998642357999999999999 9999999998754432 5999999999999999775 44
Q ss_pred C
Q 047652 93 C 93 (104)
Q Consensus 93 C 93 (104)
|
T Consensus 79 C 79 (79)
T smart00499 79 C 79 (79)
T ss_pred C
Confidence 4
>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 ....
>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
>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.
