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= 030601
(174 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K8K|E Chain E, Crystal Structure Of Arp23 COMPLEX
pdb|1TYQ|E Chain E, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
Calcium
pdb|1U2V|E Chain E, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
Calcium
pdb|2P9I|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp And Crosslinked With Gluteraldehyde
pdb|2P9K|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Atp And Crosslinked With Glutaraldehyde
pdb|2P9L|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX
pdb|2P9N|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9P|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9S|E Chain E, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
AtpMG2+
pdb|2P9U|E Chain E, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Amp-Pnp And Calcium
pdb|3DXK|E Chain E, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0944636
pdb|3DXM|E Chain E, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0993548
pdb|3RSE|E Chain E, Structural And Biochemical Characterization Of Two Binding
Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
COMPLEX
pdb|3UKR|E Chain E, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-666
pdb|3UKU|E Chain E, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
pdb|3ULE|E Chain E, Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-869 And Atp
Length = 178
Score = 167 bits (422), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 82/171 (47%), Positives = 116/171 (67%), Gaps = 5/171 (2%)
Query: 2 VYHSSFVDEEGVTKACG-CPLLPLKSHIKGPAPASDQDRTDIVDEAITFFRANVFFRNFD 60
YHSS +D + TK G LLP++S KGPAP +D TDIVDEAI +F+ANVFF+N++
Sbjct: 3 AYHSSLMDPD--TKLIGNMALLPIRSQFKGPAPRETKD-TDIVDEAIYYFKANVFFKNYE 59
Query: 61 IKSSADKLLIYLTFYINVALKRLEGRRTLAEGTKAIINLGLEKVPVPGEPNFPFPGLFAL 120
IK+ AD+ LIY+T YI+ LK+L+ + ++G K + LG+ P+PGEP FP ++A
Sbjct: 60 IKNEADRTLIYITLYISECLKKLQKCNSKSQGEKEMYTLGITNFPIPGEPGFPLNAIYAK 119
Query: 121 PQSQKEAELFRNYLKQIREETSGRLLSVAYRP-NGTPNKWWLAFAKRKFMN 170
P +++E E+ R YL+Q+R+ET RL + P N P+KWW F KR+FMN
Sbjct: 120 PANKQEDEVMRAYLQQLRQETGLRLCEKVFDPQNDKPSKWWTCFVKRQFMN 170
>pdb|3DWL|E Chain E, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|J Chain J, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 174
Score = 145 bits (366), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 74/170 (43%), Positives = 101/170 (59%), Gaps = 2/170 (1%)
Query: 2 VYHSSFVDEEGVTKACGCPLLPLKSHIKGPAPASDQDRTDIVDEAITFFRANVFFRNFDI 61
YHSSF+ V +LPLK+ +GPA +D+ + DI+DE I FRAN FFRNF+I
Sbjct: 3 AYHSSFLSLTDVPTTGNIAMLPLKTKFRGPAYPADESQMDIIDECIGLFRANCFFRNFEI 62
Query: 62 KSSADKLLIYLTFYINVALKRLEGRRTLAEGTKAIINLGLEKVPVPGEPNFPFPGLFALP 121
K AD+ LIY T +I+ L R+ G + + + +L LE +PG FP L+A P
Sbjct: 63 KGPADRTLIYGTLFISECLGRVNG-LNYRDAERQLNSLALENFSIPGSAGFPLNALYAPP 121
Query: 122 QSQKEAELFRNYLKQIREETSGRLLSVAY-RPNGTPNKWWLAFAKRKFMN 170
S ++AE+ R YL Q R+E + RLLS Y P+KWW F+KR+FMN
Sbjct: 122 LSPQDAEIMRTYLTQFRQELAYRLLSHVYATEKDHPSKWWTCFSKRRFMN 171
>pdb|3IXZ|A Chain A, Pig Gastric H+K+-Atpase Complexed With Aluminium Fluoride
pdb|2XZB|A Chain A, Pig Gastric H,K-Atpase With Bound Bef And Sch28080
pdb|2YN9|A Chain A, Cryo-em Structure Of Gastric H+,k+-atpase With Bound
Rubidium
Length = 1034
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%)
Query: 48 TFFRANVFFRNFDIKSSADKLLIYLTFYINVALKRLEGRRTLAEGTKAIINLGLEKV 104
TF RA VFF + + LL +T +++ KRL + + + +A+ LG V
Sbjct: 326 TFLRAMVFFMAIVVAYVPEGLLATVTVCLSLTAKRLASKNCVVKNLEAVETLGSTSV 382
>pdb|1TW0|A Chain A, Native Crystal Structure Of Spe16
pdb|1TW0|B Chain B, Native Crystal Structure Of Spe16
pdb|1TXC|A Chain A, Complex Crystal Structure Of Spe16 With Ans
pdb|1TXC|B Chain B, Complex Crystal Structure Of Spe16 With Ans
Length = 157
Score = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 22 LPLKSHIKGPAPASDQDRTDIVDEAITFFRA 52
+ LK H KG AP SD R D + + FF+A
Sbjct: 115 VTLKFHTKGDAPLSDAVRDDALAKGAGFFKA 145
>pdb|3QZX|A Chain A, 3d Structure Of Ferric Methanosarcina Acetivorans
Protoglobin Y61a Mutant With Unknown Ligand
Length = 195
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 30/56 (53%), Gaps = 6/56 (10%)
Query: 124 QKEAELFRNYLKQIREETSG------RLLSVAYRPNGTPNKWWLAFAKRKFMNIIV 173
QK E+ + +++I + +G LL P+GTPN+ +LA +++F I+
Sbjct: 43 QKAGEVLEDQVEEILDTWAGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWIL 98
>pdb|2JKF|A Chain A, Plasmodium Falciparum Profilin
pdb|2JKG|A Chain A, Plasmodium Falciparum Profilin
Length = 179
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 26/63 (41%), Gaps = 1/63 (1%)
Query: 109 EPNFPFPGLFALPQSQKEAELFRNYLKQIREETSGRLLSVAYRPNGTPNKWWLAFAKRKF 168
+PNF LF E E N K + G+ + V + P+ WL K +F
Sbjct: 45 DPNFDKWSLFYKEDYDIEVE-DENGTKTTKTINEGQTILVVFNEGYAPDGVWLGGTKYQF 103
Query: 169 MNI 171
+NI
Sbjct: 104 INI 106
>pdb|3R0G|A Chain A, 3d Structure Of Ferric Methanosarcina Acetivorans
Protoglobin I149f Mutant In Aquomet Form
pdb|3R0G|B Chain B, 3d Structure Of Ferric Methanosarcina Acetivorans
Protoglobin I149f Mutant In Aquomet Form
Length = 195
Score = 26.6 bits (57), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 124 QKEAELFRNYLKQIREETSG------RLLSVAYRPNGTPNKWWLAFAKRKFMNIIV 173
QK E+ + +++I + G LL P+GTPN+ +LA +++F I+
Sbjct: 43 QKAGEVLEDQVEEILDTWYGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWIL 98
>pdb|2VEB|A Chain A, High Resolution Structure Of Protoglobin From
Methanosarcina Acetivorans C2a
pdb|2VEE|A Chain A, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|B Chain B, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|C Chain C, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|D Chain D, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|E Chain E, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|F Chain F, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|G Chain G, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
pdb|2VEE|H Chain H, Structure Of Protoglobin From Methanosarcina Acetivorans
C2a
Length = 195
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 124 QKEAELFRNYLKQIREETSG------RLLSVAYRPNGTPNKWWLAFAKRKFMNIIV 173
QK E+ + +++I + G LL P+GTPN+ +LA +++F I+
Sbjct: 43 QKAGEVLEDQVEEILDTWYGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWIL 98
>pdb|3QZZ|A Chain A, 3d Structure Of Ferric Methanosarcina Acetivorans
Protoglobin Y61w Mutant In Aquomet Form
Length = 195
Score = 26.2 bits (56), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 29/56 (51%), Gaps = 6/56 (10%)
Query: 124 QKEAELFRNYLKQIREETSG------RLLSVAYRPNGTPNKWWLAFAKRKFMNIIV 173
QK E+ + +++I + G LL P+GTPN+ +LA +++F I+
Sbjct: 43 QKAGEVLEDQVEEILDTWWGFVGSHPHLLYYFTSPDGTPNEKYLAAVRKRFSRWIL 98
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
0.322 0.139 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,194,973
Number of Sequences: 62578
Number of extensions: 201132
Number of successful extensions: 437
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 428
Number of HSP's gapped (non-prelim): 14
length of query: 174
length of database: 14,973,337
effective HSP length: 92
effective length of query: 82
effective length of database: 9,216,161
effective search space: 755725202
effective search space used: 755725202
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: 48 (23.1 bits)