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= psy11577
(89 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1UW5|A Chain A, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
pdb|1UW5|B Chain B, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
pdb|1UW5|C Chain C, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
pdb|1UW5|D Chain D, Structure Of Pitp-Alpha Complexed To Phosphatidylinositol
Length = 270
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/47 (55%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 42 VHDLPADKLKVREVVHIDIGN-DPVSAGDYKETEDPAKFKSEKTGRG 87
VH L + K E V+IDI + V + DYK EDPAKFKS KTGRG
Sbjct: 125 VHKLEPEAWKHVEAVYIDIADRSQVLSKDYKAEEDPAKFKSIKTGRG 171
>pdb|1KCM|A Chain A, Crystal Structure Of Mouse Pitp Alpha Void Of Bound
Phospholipid At 2.0 Angstroms Resolution
Length = 270
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 42 VHDLPADKLKVREVVHIDIGN-DPVSAGDYKETEDPAKFKSEKTGRG 87
VH L + K E ++IDI + V + DYK EDPAKFKS KTGRG
Sbjct: 125 VHKLEPEAWKHVEAIYIDIADRSQVLSKDYKAEEDPAKFKSVKTGRG 171
>pdb|1T27|A Chain A, The Structure Of Pitp Complexed To Phosphatidylcholine
Length = 271
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/47 (53%), Positives = 30/47 (63%), Gaps = 1/47 (2%)
Query: 42 VHDLPADKLKVREVVHIDIGN-DPVSAGDYKETEDPAKFKSEKTGRG 87
VH L + K E ++IDI + V + DYK EDPAKFKS KTGRG
Sbjct: 126 VHKLEPEAWKHVEAIYIDIADRSQVLSKDYKAEEDPAKFKSIKTGRG 172
>pdb|2A1L|A Chain A, Rat Pitp-Beta Complexed To Phosphatidylcholine
Length = 270
Score = 43.9 bits (102), Expect = 2e-05, Method: Composition-based stats.
Identities = 24/47 (51%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 42 VHDLPADKLKVREVVHIDIGN-DPVSAGDYKETEDPAKFKSEKTGRG 87
VH L + K E+VHIDI + V DYK EDPA F+S KT RG
Sbjct: 124 VHGLDPNTWKTVEIVHIDIADRSQVEPADYKADEDPALFQSVKTKRG 170
>pdb|1JYJ|A Chain A, Crystal Structure Of A Double Variant (W67lW91H) OF
RECOMBINANT HUMAN Serum Retinol-Binding Protein At 2.0
A Resolution
Length = 183
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + ++D+ D V G + +TEDPAKFK + G
Sbjct: 61 RVRLLNNLDVCADMV--GTFTDTEDPAKFKMKYHG 93
>pdb|1RLB|E Chain E, Retinol Binding Protein Complexed With Transthyretin
pdb|1RLB|F Chain F, Retinol Binding Protein Complexed With Transthyretin
Length = 174
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 43 HDLPADKLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
H K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 52 HMSATAKGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1QAB|E Chain E, The Structure Of Human Retinol Binding Protein With Its
Carrier Protein Transthyretin Reveals Interaction With
The Carboxy Terminus Of Rbp
pdb|1QAB|F Chain F, The Structure Of Human Retinol Binding Protein With Its
Carrier Protein Transthyretin Reveals Interaction With
The Carboxy Terminus Of Rbp
Length = 180
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 57 RVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 89
>pdb|3FMZ|A Chain A, Crystal Structure Of Retinol-Binding Protein 4 (Rbp4) In
Complex With Non-Retinoid Ligand
pdb|3FMZ|B Chain B, Crystal Structure Of Retinol-Binding Protein 4 (Rbp4) In
Complex With Non-Retinoid Ligand
Length = 212
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 89 RVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 121
>pdb|1KT5|A Chain A, Crystal Structure Of Bovine Holo-rbp At Ph 4.0
Length = 175
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 43 HDLPADKLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
H K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 52 HMSATAKGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1KT3|A Chain A, Crystal Structure Of Bovine Holo-Rbp At Ph 2.0
pdb|1KT4|A Chain A, Crystal Structure Of Bovine Holo-Rbp At Ph 3.0
pdb|1KT6|A Chain A, Crystal Structure Of Bovine Holo-Rbp At Ph 9.0
pdb|1KT7|A Chain A, Crystal Structure Of Bovine Holo-rbp At Ph 7.0
pdb|1ERB|A Chain A, The Interaction Of N-Ethyl Retinamide With Plasma
Retinol- Binding Protein (Rbp) And The Crystal
Structure Of The Retinoid-Rbp Complex At 1.9 Angstroms
Resolution
pdb|1FEL|A Chain A, Crystallographic Studies On Complexes Between Retinoids
And Plasma Retinol-Binding Protein
pdb|1FEM|A Chain A, Crystallographic Studies On Complexes Between Retinoids
And Plasma Retinol-Binding Protein
pdb|1FEN|A Chain A, Crystallographic Studies On Complexes Between Retinoids
And Plasma Retinol-Binding Protein
pdb|1HBP|A Chain A, Crystal Structure Of Liganded And Unliganded Forms Of
Bovine Plasma Retinol-Binding Protein
Length = 183
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 43 HDLPADKLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
H K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 52 HMSATAKGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1AQB|A Chain A, Retinol-Binding Protein (Rbp) From Pig Plasma
Length = 183
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 24/43 (55%), Gaps = 2/43 (4%)
Query: 43 HDLPADKLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
H K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 52 HMSATAKGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|2WR6|A Chain A, Structure Of The Complex Of Rbp4 With Linoleic Acid
Length = 175
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 49 KLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 59 KGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 93
>pdb|2WQ9|A Chain A, Crystal Structure Of Rbp4 Bound To Oleic Acid
Length = 174
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 60 RVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|2WQA|E Chain E, Complex Of Ttr And Rbp4 And Oleic Acid
pdb|2WQA|F Chain F, Complex Of Ttr And Rbp4 And Oleic Acid
Length = 177
Score = 28.5 bits (62), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 49 KLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 59 KGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 93
>pdb|3BSZ|E Chain E, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
pdb|3BSZ|F Chain F, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
Length = 176
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 49 KLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 58 KGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1JYD|A Chain A, Crystal Structure Of Recombinant Human Serum
Retinol-Binding Protein At 1.7 A Resolution
Length = 183
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 61 RVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 93
>pdb|1BRP|A Chain A, Crystal Structure Of The Trigonal Form Of Human Plasma
Retinol-Binding Protein At 2.5 Angstroms Resolution
pdb|1BRQ|A Chain A, Crystal Structure Of The Trigonal Form Of Human Plasma
Retinol-Binding Protein At 2.5 Angstroms Resolution
pdb|1RBP|A Chain A, Crystallographic Refinement Of Human Serum Retinol
Binding Protein At 2 Angstroms Resolution
Length = 182
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 49 KLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
K +VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 58 KGRVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1HBQ|A Chain A, Crystal Structure Of Liganded And Unliganded Forms Of
Bovine Plasma Retinol-Binding Protein
Length = 183
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 22/35 (62%), Gaps = 2/35 (5%)
Query: 51 KVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
+VR + + D+ D V G + +TEDPAKFK + G
Sbjct: 60 RVRLLNNWDVCADMV--GTFTDTEDPAKFKMKYWG 92
>pdb|1IIU|A Chain A, Chicken Plasma Retinol-binding Protein (rbp)
Length = 174
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%), Gaps = 2/37 (5%)
Query: 49 KLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSEKTG 85
K +VR + D+ D + G + +TEDPAKFK + G
Sbjct: 57 KGRVRLFNNWDVCADMI--GSFTDTEDPAKFKMKYWG 91
>pdb|1ZY9|A Chain A, Crystal Structure Of Alpha-Galactosidase (Ec 3.2.1.22)
(Melibiase) (Tm1192) From Thermotoga Maritima At 2.34 A
Resolution
Length = 564
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 36 LPGFGLVHDLPADKLKVREVVHIDIGNDPVSAGDYKETEDPAKFKSE 82
L L + P + ++ + DIG+ V+ GD+ E+ AK +E
Sbjct: 215 LKNLKLAKNFPFEVFQIDDAYEKDIGDWLVTRGDFPSVEEXAKVIAE 261
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
0.313 0.140 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,023,728
Number of Sequences: 62578
Number of extensions: 64511
Number of successful extensions: 123
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 102
Number of HSP's gapped (non-prelim): 20
length of query: 89
length of database: 14,973,337
effective HSP length: 56
effective length of query: 33
effective length of database: 11,468,969
effective search space: 378475977
effective search space used: 378475977
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 45 (21.9 bits)