BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= 044049
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1T12|A Chain A, Solution Structure Of A New Ltp1
Length = 91
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 39/79 (49%), Gaps = 9/79 (11%)
Query: 42 CSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESVIKS-----NFHCICEAIKSSSDLGL 96
C +V NL+ CL +L +T P CC G ++++ S + C +KS++
Sbjct: 4 CGQVTSNLAPCLAYL----RNTGPLGRCCGGVKALVNSARTTEDRQIACTCLKSAAGAIS 59
Query: 97 DLNLTRAFTLSSDCAISAP 115
+NL +A L S C ++ P
Sbjct: 60 GINLGKAAGLPSTCGVNIP 78
>pdb|1SIY|A Chain A, Nmr Structure Of Mung Bean Non-Specific Lipid Transfer
Protein 1
Length = 91
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 39/79 (49%), Gaps = 8/79 (10%)
Query: 42 CSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESVIKS-----NFHCICEAIKSSSDLGL 96
C +V NL+ C+ FL KG P S CC+G ++++ S + +C +K+++
Sbjct: 3 CGQVQGNLAQCIGFLQKGG--VVPPS-CCTGVKNILNSSRTTADRRAVCSCLKAAAGAVR 59
Query: 97 DLNLTRAFTLSSDCAISAP 115
+N A L C ++ P
Sbjct: 60 GINPNNAEALPGKCGVNIP 78
>pdb|2LJO|A Chain A, 3d Solution Structure Of Lipid Transfer Protein Lc-Ltp2
Length = 93
Score = 33.9 bits (76), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 41 DCSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESVIKS-----NFHCICEAIKSSSDLG 95
C V +LS CL +L+ G P CC G + ++ + + C +KS++
Sbjct: 3 SCGAVTSDLSPCLTYLTGGPG---PSPQCCGGVKKLLAAANTTPDRQAACNCLKSAAGSI 59
Query: 96 LDLNLTRAFTLSSDCAISAP 115
LN A L C ++ P
Sbjct: 60 TKLNTNNAAALPGKCGVNIP 79
>pdb|1UVA|A Chain A, Lipid Binding In Rice Nonspecific Lipid Transfer Protein-1
Complexes From Oryza Sativa
pdb|1UVB|A Chain A, Lipid Binding In Rice Nonspecific Lipid Transfer Protein-1
Complexes From Oryza Sativa
pdb|1UVC|A Chain A, Lipid Binding In Rice Nonspecific Lipid Transfer Protein-1
Complexes From Oryza Sativa
pdb|1UVC|B Chain B, Lipid Binding In Rice Nonspecific Lipid Transfer Protein-1
Complexes From Oryza Sativa
pdb|1BV2|A Chain A, Lipid Transfer Protein From Rice Seeds, Nmr, 14 Structures
pdb|1RZL|A Chain A, Rice Nonspecific Lipid Transfer Protein
Length = 91
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 42 CSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESV-----IKSNFHCICEAIKSSSDLGL 96
C +V + CL + G+ P + CCSG S+ ++ C +K+++
Sbjct: 3 CGQVNSAVGPCLTYARGGAG---PSAACCSGVRSLKAAASTTADRRTACNCLKNAARGIK 59
Query: 97 DLNLTRAFTLSSDCAISAP 115
LN A ++ S C +S P
Sbjct: 60 GLNAGNAASIPSKCGVSVP 78
>pdb|1MID|A Chain A, Non-Specific Lipid Transfer Protein 1 From Barley In
Complex With L-Alfa-Lysophosphatidylcholine, Laudoyl
pdb|3GSH|A Chain A, Three-Dimensional Structure Of A Post Translational
Modified Barley Ltp1
pdb|3GSH|B Chain B, Three-Dimensional Structure Of A Post Translational
Modified Barley Ltp1
Length = 91
Score = 29.6 bits (65), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 41 DCSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESVIKS-----NFHCICEAIKSSSDLG 95
+C +V + CL ++ G P CC+G + + +C +K +
Sbjct: 2 NCGQVDSKMKPCLTYVQGGPG---PSGECCNGVRDLHNQAQSSGDRQTVCNCLKGIARGI 58
Query: 96 LDLNLTRAFTLSSDCAISAP 115
+LNL A ++ S C ++ P
Sbjct: 59 HNLNLNNAASIPSKCNVNVP 78
>pdb|1BE2|A Chain A, Lipid Transfer Protein Complexed With Palmitate, Nmr, 10
Structures
pdb|1JTB|A Chain A, Lipid Transfer Protein Complexed With Palmitoyl Coenzyme
A, Nmr, 16 Structures
pdb|1LIP|A Chain A, Barley Lipid Transfer Protein (Nmr, 4 Structures)
Length = 91
Score = 29.6 bits (65), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 34/80 (42%), Gaps = 8/80 (10%)
Query: 41 DCSEVIYNLSDCLDFLSKGSNHTKPGSNCCSGFESVIKS-----NFHCICEAIKSSSDLG 95
+C +V + CL ++ G P CC+G + + +C +K +
Sbjct: 2 NCGQVDSKMKPCLTYVQGGPG---PSGECCNGVRDLHNQAQSSGDRQTVCNCLKGIARGI 58
Query: 96 LDLNLTRAFTLSSDCAISAP 115
+LNL A ++ S C ++ P
Sbjct: 59 HNLNLNNAASIPSKCNVNVP 78
>pdb|3BBO|R Chain R, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 233
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 2/35 (5%)
Query: 76 VIKSNFHCICEAIKSSSDLGLDLNLTRAFTLSSDC 110
VI SN C +K LG ++ R F+LSS+C
Sbjct: 12 VIPSNHSLQCPPLKK--QLGFPIDSNRRFSLSSNC 44
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.135 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,065,620
Number of Sequences: 62578
Number of extensions: 89358
Number of successful extensions: 124
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 123
Number of HSP's gapped (non-prelim): 7
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)