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= psy4618
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KXP|B Chain B, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 270
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/35 (80%), Positives = 31/35 (88%)
Query: 41 DSITPSDQPLKIARDKEMGKDYLLCDYNRDGDSYR 75
D ++ DQPLKIARDK +GKDYLLCDYNRDGDSYR
Sbjct: 37 DLLSSVDQPLKIARDKVVGKDYLLCDYNRDGDSYR 71
>pdb|3LK2|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
Length = 243
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/35 (80%), Positives = 31/35 (88%)
Query: 41 DSITPSDQPLKIARDKEMGKDYLLCDYNRDGDSYR 75
D ++ DQPLKIARDK +GKDYLLCDYNRDGDSYR
Sbjct: 38 DLLSSVDQPLKIARDKVVGKDYLLCDYNRDGDSYR 72
>pdb|3AA0|B Chain B, Crystal Structure Of Actin Capping Protein In Complex
With The Cp- Binding Motif Derived From Carmil
pdb|3AA1|B Chain B, Crystal Structure Of Actin Capping Protein In Complex
With The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|B Chain B, Crystal Structure Of Actin Capping Protein In Complex
With The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|B Chain B, Crystal Structure Of Actin Capping Protein
Length = 244
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/35 (80%), Positives = 31/35 (88%)
Query: 41 DSITPSDQPLKIARDKEMGKDYLLCDYNRDGDSYR 75
D ++ DQPLKIARDK +GKDYLLCDYNRDGDSYR
Sbjct: 38 DLLSSVDQPLKIARDKVVGKDYLLCDYNRDGDSYR 72
>pdb|1IZN|B Chain B, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|D Chain D, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK3|B Chain B, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|B Chain B, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|E Chain E, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|H Chain H, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|K Chain K, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|N Chain N, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Q Chain Q, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|T Chain T, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|W Chain W, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Z Chain Z, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|2 Chain 2, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|5 Chain 5, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|8 Chain 8, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|B Chain B, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AAA|B Chain B, Crystal Structure Of Actin Capping Protein In Complex
With V-1
pdb|3AAE|B Chain B, Crystal Structure Of Actin Capping Protein In Complex
With Carmil Fragment
pdb|3AAE|D Chain D, Crystal Structure Of Actin Capping Protein In Complex
With Carmil Fragment
pdb|3AAE|F Chain F, Crystal Structure Of Actin Capping Protein In Complex
With Carmil Fragment
pdb|3AAE|H Chain H, Crystal Structure Of Actin Capping Protein In Complex
With Carmil Fragment
pdb|3AAE|J Chain J, Crystal Structure Of Actin Capping Protein In Complex
With Carmil Fragment
Length = 277
Score = 64.3 bits (155), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 28/35 (80%), Positives = 31/35 (88%)
Query: 41 DSITPSDQPLKIARDKEMGKDYLLCDYNRDGDSYR 75
D ++ DQPLKIARDK +GKDYLLCDYNRDGDSYR
Sbjct: 38 DLLSSVDQPLKIARDKVVGKDYLLCDYNRDGDSYR 72
>pdb|4AKR|B Chain B, Crystal Structure Of The Cytoplasmic Actin Capping
Protein Cap32_34 From Dictyostelium Discoideum
pdb|4AKR|D Chain D, Crystal Structure Of The Cytoplasmic Actin Capping
Protein Cap32_34 From Dictyostelium Discoideum
Length = 290
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/35 (65%), Positives = 26/35 (74%)
Query: 41 DSITPSDQPLKIARDKEMGKDYLLCDYNRDGDSYR 75
D ++ DQPLK+A D KDYLLCDYNRD DSYR
Sbjct: 56 DLLSSIDQPLKVAYDAVSKKDYLLCDYNRDADSYR 90
>pdb|2P22|A Chain A, Structure Of The Yeast Escrt-i Heterotetramer Core
Length = 174
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 2/80 (2%)
Query: 11 NASPDSMQANRSSGSMHTLSPYSDDSSQKSDSITPSDQPLKIARDKEMGKDYLLCDYNRD 70
NA D + ANR+ + + + DD S ++ +D ++ + +DY L D
Sbjct: 76 NAQIDVLTANRAKVQQFSSTSHVDDEDVNSIAVAKTDGLNQLY--NLVAQDYALTDTIEC 133
Query: 71 GDSYRHRAAKAIDTYFKSGR 90
HR +DT+ K GR
Sbjct: 134 LSRMLHRGTIPLDTFVKQGR 153
>pdb|1YWK|A Chain A, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
pdb|1YWK|B Chain B, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
pdb|1YWK|C Chain C, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
pdb|1YWK|D Chain D, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
pdb|1YWK|E Chain E, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
pdb|1YWK|F Chain F, Crystal Structure Of
4-Deoxy-1-Threo-5-Hexosulose-Uronate Ketol-Isomerase
From Enterococcus Faecalis
Length = 289
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 19/33 (57%)
Query: 32 YSDDSSQKSDSITPSDQPLKIARDKEMGKDYLL 64
Y+ + +TP+ + L+I DKE+G DY L
Sbjct: 44 YTHNDRMIFGGVTPTTEELEIILDKELGVDYFL 76
>pdb|2BEC|A Chain A, Crystal Structure Of Chp2 In Complex With Its Binding
Region In Nhe1 And Insights Into The Mechanism Of Ph
Regulation
Length = 202
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 6/72 (8%)
Query: 14 PDSMQANRSSGSMHTLS---PYSDDSSQKSDSITPSDQPLKIARDKEMGKDYLLCDYNRD 70
PD Q G + L+ P D+ ++ D P +PL R+K + + L D +RD
Sbjct: 72 PDGSQRVDFPGFVRVLAHFRPVEDEDTETQDPKKP--EPLNSRRNK-LHYAFQLYDLDRD 128
Query: 71 GDSYRHRAAKAI 82
G RH + +
Sbjct: 129 GKISRHEMLQVL 140
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
0.306 0.122 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,842,983
Number of Sequences: 62578
Number of extensions: 98901
Number of successful extensions: 113
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 106
Number of HSP's gapped (non-prelim): 9
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 45 (21.9 bits)