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= psy9053
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1K8K|F Chain F, Crystal Structure Of Arp23 COMPLEX
pdb|1TYQ|F Chain F, Crystal Structure Of Arp23 COMPLEX WITH BOUND ATP AND
Calcium
pdb|1U2V|F Chain F, Crystal Structure Of Arp23 COMPLEX WITH BOUND ADP AND
Calcium
pdb|2P9I|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp And Crosslinked With Gluteraldehyde
pdb|2P9K|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Atp And Crosslinked With Glutaraldehyde
pdb|2P9L|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX
pdb|2P9N|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9P|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Adp
pdb|2P9S|F Chain F, Structure Of Bovine Arp23 COMPLEX CO-Crystallized With
AtpMG2+
pdb|2P9U|F Chain F, Crystal Structure Of Bovine Arp23 COMPLEX CO-Crystallized
With Amp-Pnp And Calcium
pdb|3DXK|F Chain F, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0944636
pdb|3DXM|F Chain F, Structure Of Bos Taurus Arp23 COMPLEX WITH BOUND INHIBITOR
Ck0993548
pdb|3RSE|F Chain F, Structural And Biochemical Characterization Of Two Binding
Sites For Nucleation Promoting Factor Wasp-Vca On Arp23
COMPLEX
pdb|3UKR|F Chain F, Crystal Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-666
pdb|3UKU|F Chain F, Structure Of Arp2/3 Complex With Bound Inhibitor Ck-869
pdb|3ULE|F Chain F, Structure Of Bos Taurus Arp2/3 Complex With Bound
Inhibitor Ck-869 And Atp
Length = 168
Score = 308 bits (788), Expect = 1e-84, Method: Compositional matrix adjust.
Identities = 148/168 (88%), Positives = 158/168 (94%)
Query: 1 MSSTLMPYLKVVRHTLNAAMCLENFSSQVVERHNKPEVEVRTSKELLLTPVLISRNEKEK 60
M++TL PYL VR TL AA+CLENFSSQVVERHNKPEVEVR+SKELLL PV ISRNEKEK
Sbjct: 1 MTATLRPYLSAVRATLQAALCLENFSSQVVERHNKPEVEVRSSKELLLQPVTISRNEKEK 60
Query: 61 VLIEGSINSVRISIAVKQADEIEKILCHKFMRFMMMRAENFIVLRRKPIEGYDISFLITN 120
VLIEGSINSVR+SIAVKQADEIEKILCHKFMRFMMMRAENF +LRRKP+EGYDISFLITN
Sbjct: 61 VLIEGSINSVRVSIAVKQADEIEKILCHKFMRFMMMRAENFFILRRKPVEGYDISFLITN 120
Query: 121 FHTEQMYKHKLVDFVLHFMEEIDKEISEMKLAVNARARICSEEFLKRF 168
FHTEQMYKHKLVDFV+HFMEEIDKEISEMKL+VNARARI +EEFLK F
Sbjct: 121 FHTEQMYKHKLVDFVIHFMEEIDKEISEMKLSVNARARIVAEEFLKNF 168
>pdb|3DWL|F Chain F, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|K Chain K, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 168
Score = 230 bits (586), Expect = 3e-61, Method: Compositional matrix adjust.
Identities = 107/168 (63%), Positives = 138/168 (82%)
Query: 1 MSSTLMPYLKVVRHTLNAAMCLENFSSQVVERHNKPEVEVRTSKELLLTPVLISRNEKEK 60
MS+TL PYL VR TL A++ LE FSS++VER ++PEVEV S E+LL P+++SRNE+E+
Sbjct: 1 MSNTLRPYLNAVRSTLTASLALEEFSSEIVERQSQPEVEVGRSPEILLKPLVVSRNEQEQ 60
Query: 61 VLIEGSINSVRISIAVKQADEIEKILCHKFMRFMMMRAENFIVLRRKPIEGYDISFLITN 120
LIE S+NSVR SI +KQ DEIE+IL KFM+F+M RAE+F +LRRKP++GYDISFLITN
Sbjct: 61 CLIESSVNSVRFSIRIKQVDEIERILVRKFMQFLMGRAESFFILRRKPVQGYDISFLITN 120
Query: 121 FHTEQMYKHKLVDFVLHFMEEIDKEISEMKLAVNARARICSEEFLKRF 168
+HTE+M KHKLVDF++ FMEE+D EISEMKL +N RAR+ +E +L F
Sbjct: 121 YHTEEMLKHKLVDFIIEFMEEVDAEISEMKLFLNGRARLVAETYLSCF 168
>pdb|1JMS|A Chain A, Crystal Structure Of The Catalytic Core Of Murine Terminal
Deoxynucleotidyl Transferase
Length = 381
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 104 LRRKPIEGYDISFLITNFHT----EQMYKHKLVDF 134
RR + G+D+ FLIT+ EQ HK+ DF
Sbjct: 205 FRRGKMTGHDVDFLITSPEATEDEEQQLLHKVTDF 239
>pdb|1KDH|A Chain A, Binary Complex Of Murine Terminal Deoxynucleotidyl
Transferase With A Primer Single Stranded Dna
pdb|1KEJ|A Chain A, Crystal Structure Of Murine Terminal Deoxynucleotidyl
Transferase Complexed With Ddatp
Length = 363
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 19/35 (54%), Gaps = 4/35 (11%)
Query: 104 LRRKPIEGYDISFLITNFHT----EQMYKHKLVDF 134
RR + G+D+ FLIT+ EQ HK+ DF
Sbjct: 187 FRRGKMTGHDVDFLITSPEATEDEEQQLLHKVTDF 221
>pdb|2ESV|E Chain E, Structure Of The Hla-E-VmaprtlilKK50.4 TCR COMPLEX
Length = 240
Score = 26.6 bits (57), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 102 IVLRRKPIEGYDISFLITNFHTEQMYKHKLVDFVLHFMEEIDKEISEM 149
+ LR PI G+D N + + K + F+LHF++E ++ S M
Sbjct: 17 VTLRCDPISGHD------NLYWYRRVMGKEIKFLLHFVKESKQDESGM 58
>pdb|1ZHC|A Chain A, Solution Structure Of Hp1242 From Helicobacter Pylori
Length = 76
Score = 26.2 bits (56), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/55 (23%), Positives = 33/55 (60%)
Query: 27 SQVVERHNKPEVEVRTSKELLLTPVLISRNEKEKVLIEGSINSVRISIAVKQADE 81
++ E+HN+ + +++T+++ + +S +K+K+ ++ I+S+ I KQ E
Sbjct: 20 DKIFEKHNQLDDDIKTAEQQNASDAEVSHMKKQKLKLKDEIHSMIIEYREKQKSE 74
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
0.325 0.136 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,022,733
Number of Sequences: 62578
Number of extensions: 137561
Number of successful extensions: 437
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 434
Number of HSP's gapped (non-prelim): 6
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)