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= 028126
(213 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AKR|A Chain A, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
pdb|4AKR|C Chain C, Crystal Structure Of The Cytoplasmic Actin Capping Protein
Cap32_34 From Dictyostelium Discoideum
Length = 281
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 38/104 (36%), Positives = 55/104 (52%), Gaps = 3/104 (2%)
Query: 14 EIAKWFLLNSPAGEIQYVAKDLRLVLNDNEVYDEAVSESFPIYNKSHMICLQMPAGAGDV 73
+IA FLLN+P E V D+R +L + + + +F YN S M+ +Q G+
Sbjct: 9 QIATNFLLNAPPCEFMEVVSDVRALLPSESLLNASAGSTFREYNTSQMVSVQTSKGSA-- 66
Query: 74 LVTSFGELGENEYLDPRTAQVAIVDHVKQ-VGAHYFEEGNVQLD 116
L+T GE+ NEYLDP+ QV DH+KQ V G ++ D
Sbjct: 67 LITKEGEISNNEYLDPKNKQVITYDHIKQEVTGERSASGEIEQD 110
Score = 29.3 bits (64), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 13/15 (86%)
Query: 102 QVGAHYFEEGNVQLD 116
QV HYFE+GNVQL+
Sbjct: 189 QVNVHYFEDGNVQLN 203
>pdb|1IZN|A Chain A, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|1IZN|C Chain C, Crystal Structure Of Actin Filament Capping Protein Capz
pdb|3LK2|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Carmil
pdb|3LK3|A Chain A, Crystal Structure Of Capz Bound To The Cpi And Csi
Uncapping Motifs From Carmil
pdb|3LK4|A Chain A, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|D Chain D, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|G Chain G, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|J Chain J, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|M Chain M, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|P Chain P, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|S Chain S, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|V Chain V, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|Y Chain Y, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|1 Chain 1, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|4 Chain 4, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|3LK4|7 Chain 7, Crystal Structure Of Capz Bound To The Uncapping Motif
From Cd2ap
pdb|2KZ7|A Chain A, Solution Structure Of The Carmil Cah3aB DOMAIN BOUND TO
CAPPING Protein (Cp)
pdb|3AA0|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Carmil
pdb|3AA1|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Ckip-1
pdb|3AA6|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
The Cp- Binding Motif Derived From Cd2ap
pdb|3AA7|A Chain A, Crystal Structure Of Actin Capping Protein
pdb|3AAA|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
V-1
pdb|3AAE|A Chain A, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|C Chain C, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|E Chain E, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|G Chain G, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
pdb|3AAE|I Chain I, Crystal Structure Of Actin Capping Protein In Complex With
Carmil Fragment
Length = 286
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 53/99 (53%)
Query: 4 EVELNPKQKKEIAKWFLLNSPAGEIQYVAKDLRLVLNDNEVYDEAVSESFPIYNKSHMIC 63
E ++ ++K IA F+ ++P GE V D+RL+LN++ + E + +F YN
Sbjct: 5 EDRVSDEEKVRIAAKFITHAPPGEFNEVFNDVRLLLNNDNLLREGAAHAFAQYNMDQFTP 64
Query: 64 LQMPAGAGDVLVTSFGELGENEYLDPRTAQVAIVDHVKQ 102
+++ VL+T G+LG +LDPR DH+++
Sbjct: 65 VKIEGYDDQVLITEHGDLGNGRFLDPRNKISFKFDHLRK 103
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 87 LDPRTAQVAIVDHVKQVGAHYFEEGNVQLDAKHECGDSTLFQSPDDSAISISNILRHHET 146
+ P TAQVA V ++ HY+E+GNVQL + + DS S +A I+ + E
Sbjct: 181 ITPPTAQVAAV---LKIQVHYYEDGNVQLVSHKDIQDSVQVSSDVQTAKEFIKIIENAEN 237
Query: 147 EYLASL 152
EY ++
Sbjct: 238 EYQTAI 243
>pdb|2KXP|A Chain A, Solution Nmr Structure Of V-1 Bound To Capping Protein
(Cp)
Length = 275
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 52/97 (53%)
Query: 6 ELNPKQKKEIAKWFLLNSPAGEIQYVAKDLRLVLNDNEVYDEAVSESFPIYNKSHMICLQ 65
++ ++K IA F+ ++P GE V D+RL+LN++ + E + +F YN ++
Sbjct: 1 RVSDEEKVRIAAKFITHAPPGEFNEVFNDVRLLLNNDNLLREGAAHAFAQYNMDQFTPVK 60
Query: 66 MPAGAGDVLVTSFGELGENEYLDPRTAQVAIVDHVKQ 102
+ VL+T G+LG +LDPR DH+++
Sbjct: 61 IEGYDDQVLITEHGDLGNGRFLDPRNKISFKFDHLRK 97
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 3/66 (4%)
Query: 87 LDPRTAQVAIVDHVKQVGAHYFEEGNVQLDAKHECGDSTLFQSPDDSAISISNILRHHET 146
+ P TAQVA V ++ HY+E+GNVQL + + DS S +A I+ + E
Sbjct: 175 ITPPTAQVAAV---LKIQVHYYEDGNVQLVSHKDIQDSVQVSSDVQTAKEFIKIIENAEN 231
Query: 147 EYLASL 152
EY ++
Sbjct: 232 EYQTAI 237
>pdb|2OKX|A Chain A, Crystal Structure Of Gh78 Family Rhamnosidase Of Bacillus
Sp. Gl1 At 1.9 A
pdb|2OKX|B Chain B, Crystal Structure Of Gh78 Family Rhamnosidase Of Bacillus
Sp. Gl1 At 1.9 A
Length = 956
Score = 34.3 bits (77), Expect = 0.046, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 38/83 (45%), Gaps = 9/83 (10%)
Query: 17 KWFLLNSPAGEIQYVAKDLRLVLNDNEVYDEAVSESFPIYNKSHMICLQMPAGAGDVLVT 76
+++ LN AGE LVL D D S F I +++ L+ PAG V +
Sbjct: 288 RYYSLNLAAGE--------HLVLVDITSSDHGGSSHFAIDSEA-AFTLRSPAGDNGVPLA 338
Query: 77 SFGELGENEYLDPRTAQVAIVDH 99
+ G ++EY+D R + DH
Sbjct: 339 TIGTFDQSEYIDHRPGRRMQTDH 361
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
0.320 0.137 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,265,892
Number of Sequences: 62578
Number of extensions: 245309
Number of successful extensions: 697
Number of sequences better than 100.0: 4
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 689
Number of HSP's gapped (non-prelim): 7
length of query: 213
length of database: 14,973,337
effective HSP length: 95
effective length of query: 118
effective length of database: 9,028,427
effective search space: 1065354386
effective search space used: 1065354386
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)