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= 035748
(655 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PGU|A Chain A, Yeast Actin Interacting Protein 1 (aip1), Se-met Protein,
Monoclinic Crystal Form
pdb|1PGU|B Chain B, Yeast Actin Interacting Protein 1 (aip1), Se-met Protein,
Monoclinic Crystal Form
Length = 615
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 181 YVAVGDDKGRVFVFLRNGDVSVEFYTMSELPVTAMVSYVSVYKNESVLVTGHENGVILIH 240
YVAVG ++G + D+ V F + P+ A SY+S+ +E+ + G G IL++
Sbjct: 458 YVAVGLEEGNTIQVFKLSDLEVSFDLKT--PLRAKPSYISISPSETYIAAGDVXGKILLY 515
Query: 241 KVYEK 245
+ +
Sbjct: 516 DLQSR 520
>pdb|4EIU|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacuni_03093)
From Bacteroides Uniformis Atcc 8492 At 1.90 A
Resolution
Length = 249
Score = 32.7 bits (73), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 22/37 (59%)
Query: 243 YEKPNGEDWSSLVIENVGKYVATENGEEGLSVTLLEV 279
YE+P+ W +V E GK V T+ G EG+ V L E+
Sbjct: 5 YEEPSETIWGEVVDEATGKRVLTDQGSEGIRVRLTEL 41
>pdb|1PI6|A Chain A, Yeast Actin Interacting Protein 1 (Aip1), Orthorhombic
Crystal Form
Length = 615
Score = 32.3 bits (72), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 181 YVAVGDDKGRVFVFLRNGDVSVEFYTMSELPVTAMVSYVSVYKNESVLVTGHENGVILIH 240
YVAVG ++G + D+ V F + P+ A SY+S+ +E+ + G G IL++
Sbjct: 458 YVAVGLEEGNTIQVFKLSDLEVSFDL--KTPLRAKPSYISISPSETYIAAGDVMGKILLY 515
Query: 241 KVYEK 245
+ +
Sbjct: 516 DLQSR 520
>pdb|4GLP|A Chain A, The Crystal Structure Of Soluble Human Cd14 Reveals A Bent
Solenoid With A Hydrophobic Amino-terminal Pocket
Length = 310
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 132 DGERVRSV-SVTKYSPFWSERFQFVSAVKLESDPTCINILPF 172
D E R V + ++ P WSE FQ VSAV++E +N+ PF
Sbjct: 3 DDEDFRCVCNFSEPQPDWSEAFQCVSAVEVEIHAGGLNLEPF 44
>pdb|1VYH|C Chain C, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|D Chain D, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|G Chain G, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|H Chain H, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|K Chain K, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|L Chain L, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|O Chain O, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|P Chain P, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|S Chain S, Paf-Ah Holoenzyme: Lis1ALFA2
pdb|1VYH|T Chain T, Paf-Ah Holoenzyme: Lis1ALFA2
Length = 410
Score = 30.4 bits (67), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 538 SWGPDDPFSSTTAATGAPIGSGAGERPFVDSSSRNADI--MDLRSG 581
SW P+ +SS + ATG+ PF+ S SR+ I D+ +G
Sbjct: 283 SWAPESSYSSISEATGSETKKSGKPGPFLLSGSRDKTIKMWDVSTG 328
>pdb|4DVY|P Chain P, Crystal Structure Of The Helicobacter Pylori Caga
Oncoprotein
Length = 876
Score = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 125 KEEDMIRDGERVRSVSVTK-YSPFWSERFQ-FVSAVKLESDPTCINILPFRDYEGHSKYV 182
K D+I + S TK + F +R+Q F S V ++ DP+ IN R++ +
Sbjct: 94 KSNDLINKDNLIDVESSTKSFQKFGDQRYQIFTSWVSMQKDPSKINTRSIRNFMENIIQP 153
Query: 183 AVGDDKGRV 191
+ DDK +
Sbjct: 154 PIPDDKEKA 162
>pdb|2RD6|A Chain A, Parp Complexed With A861695
pdb|3GJW|A Chain A, Parp Complexed With A968427
pdb|3GN7|A Chain A, Parp Complexed With A861696
pdb|3L3M|A Chain A, Parp Complexed With A927929
pdb|3L3L|A Chain A, Parp Complexed With A906894
Length = 350
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 359 YVFDATERSKAYGYTSEGDLIHVLLLGDVT 388
Y D +S Y +TS+GD I ++LLG+V
Sbjct: 235 YFADMVSKSANYCHTSQGDPIGLILLGEVA 264
>pdb|1UK0|A Chain A, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase With A Novel Inhibitor
pdb|1UK0|B Chain B, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase With A Novel Inhibitor
pdb|1UK1|A Chain A, Crystal Structure Of Human Poly(Adp-Ribose) Polymerase
Complexed With A Potent Inhibitor
pdb|1UK1|B Chain B, Crystal Structure Of Human Poly(Adp-Ribose) Polymerase
Complexed With A Potent Inhibitor
pdb|1WOK|A Chain A, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|B Chain B, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|C Chain C, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|1WOK|D Chain D, Crystal Structure Of Catalytic Domain Of Human Poly(Adp-
Ribose) Polymerase Complexed With A Quinoxaline-Type
Inhibitor
pdb|2RCW|A Chain A, Parp Complexed With A620223
Length = 350
Score = 29.3 bits (64), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 359 YVFDATERSKAYGYTSEGDLIHVLLLGDVT 388
Y D +S Y +TS+GD I ++LLG+V
Sbjct: 235 YFADMVSKSANYCHTSQGDPIGLILLGEVA 264
>pdb|4DQY|C Chain C, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
pdb|4DQY|F Chain F, Structure Of Human Parp-1 Bound To A Dna Double Strand
Break
Length = 506
Score = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 359 YVFDATERSKAYGYTSEGDLIHVLLLGDVT 388
Y D +S Y +TS+GD I ++LLG+V
Sbjct: 380 YFADMVSKSANYCHTSQGDPIGLILLGEVA 409
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
0.317 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,051,535
Number of Sequences: 62578
Number of extensions: 796318
Number of successful extensions: 1875
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1864
Number of HSP's gapped (non-prelim): 19
length of query: 655
length of database: 14,973,337
effective HSP length: 105
effective length of query: 550
effective length of database: 8,402,647
effective search space: 4621455850
effective search space used: 4621455850
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 55 (25.8 bits)