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= 004653
(739 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R55|A Chain A, Human Star-Related Lipid Transfer Protein 5
pdb|2R55|B Chain B, Human Star-Related Lipid Transfer Protein 5
Length = 231
Score = 35.8 bits (81), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 52/132 (39%), Gaps = 3/132 (2%)
Query: 208 WKCVRTLNGVRIFEDVADSKSGRGVLVKAVGVIDASADTVFEVVLNLERHQRYEWDMLTG 267
WK R NGV + S G L + G++ + + V++ V R +WD
Sbjct: 45 WKICREGNGVSV--SWRPSVEFPGNLYRGEGIVYGTLEEVWDCVKPAVGGLRVKWDENVT 102
Query: 268 DLELVDSYDGHYDVVYGTYDPKYLTRWQSKRDFVFSRQWFRGQDGTYTILQFPAVHKKRP 327
E++ S V T P + S RDFV R +DGT + H P
Sbjct: 103 GFEIIQSITDTL-CVSRTSTPSAAMKLISPRDFVDLVLVKRYEDGTISSNATHVEHPLCP 161
Query: 328 PKSGYRRTKINP 339
PK G+ R +P
Sbjct: 162 PKPGFVRGFNHP 173
>pdb|1M1C|A Chain A, Structure Of The L-A Virus
pdb|1M1C|B Chain B, Structure Of The L-A Virus
Length = 680
Score = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 27/55 (49%), Gaps = 1/55 (1%)
Query: 599 KPNYSLVLYYASERPVNKNSLLGKFVDGTDMFRDARFKLIPSIAEGY-WMVKRAV 652
+P S V+ A + VN N L +F + K +P+ AEGY W++ A+
Sbjct: 265 RPPSSKVMLSALRKYVNHNRLYNQFYTAAQLLAQIMMKPVPNCAEGYAWLMHDAL 319
>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 = 30.4 bits (67), Expect = 3.7, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 575 KCLVQSEAGKKLPFILVINLQVPGKPNYSLVLYYASERPVNK 616
KC +S+ K++ + + N +PG+P + L YA +P NK
Sbjct: 84 KCNSKSQGEKEMYTLGITNFPIPGEPGFPLNAIYA--KPANK 123
>pdb|2QIZ|A Chain A, Structure Of The Yeast U-Box-Containing Ubiquitin Ligase
Ufd2p
Length = 982
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 582 AGKKLPFILVINLQVPGKPNYSLVLYYASERPVNKNSLLGKFVDGTDM 629
A +PF V G NYSL + P+ +N LG FV+ T M
Sbjct: 538 AHAPVPFKYYPEFVVEGPVNYSLYISKYQTSPIFRNPRLGSFVEFTTM 585
>pdb|3M62|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
pdb|3M63|A Chain A, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Dsk2
Length = 968
Score = 29.6 bits (65), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 582 AGKKLPFILVINLQVPGKPNYSLVLYYASERPVNKNSLLGKFVDGTDM 629
A +PF V G NYSL + P+ +N LG FV+ T M
Sbjct: 524 AHAPVPFKYYPEFVVEGPVNYSLYISKYQTSPIFRNPRLGSFVEFTTM 571
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 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,332,284
Number of Sequences: 62578
Number of extensions: 895865
Number of successful extensions: 1725
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1721
Number of HSP's gapped (non-prelim): 8
length of query: 739
length of database: 14,973,337
effective HSP length: 106
effective length of query: 633
effective length of database: 8,340,069
effective search space: 5279263677
effective search space used: 5279263677
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: 55 (25.8 bits)