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= psy5396
(291 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4F0D|A Chain A, Human Artd15PARP16 IN COMPLEX WITH 3-Aminobenzamide
pdb|4F0D|B Chain B, Human Artd15PARP16 IN COMPLEX WITH 3-Aminobenzamide
Length = 277
Score = 194 bits (493), Expect = 5e-50, Method: Compositional matrix adjust.
Identities = 105/273 (38%), Positives = 169/273 (61%), Gaps = 14/273 (5%)
Query: 14 KQILAWNKLGCDIKWSIFVSACQSYRVSSCLHPFPPMFIKNQHKDISAVLECINQMPLLS 73
++ + L D++ S+F SA QSY+ S L PFP + + KD A+L +++P L
Sbjct: 8 REAAGRDMLAADLRCSLFASALQSYKRDSVLRPFPASYARGDCKDFEALLADASKLPNLK 67
Query: 74 SVLHSQRNSHPSPKLCDLIYLLHWLLVEQSPSLEEVPRDQYDSVLNLVSC-EPNVAKPDF 132
+L S ++H + DL+ W+L + ++ + +++ + L V PDF
Sbjct: 68 ELLQSSGDNHK--RAWDLV---SWILSSKVLTIHSAGKAEFEKIQKLTGAPHTPVPAPDF 122
Query: 133 IFQVQYSPQSSIESNWSKLSLGRKKILHAFHGSRLENFHSILNFGLQQHFNKNSLFGQGI 192
+F+++Y ++ + +K G + +++AFHGSRLENFHSI++ GL H NK SLFG+G
Sbjct: 123 LFEIEYFDPANAKFYETK---GERDLIYAFHGSRLENFHSIIHNGLHCHLNKTSLFGEGT 179
Query: 193 YLSSQLGICLIYSPYSAGWGGSCVGSELSIVSLCSIVDDPDQVKCQ---EDTEE-NRRRA 248
YL+S L + LIYSP+ GW S +G LS V++C ++D PD VKCQ +D++E +RRRA
Sbjct: 180 YLTSDLSLALIYSPHGHGWQHSLLGPILSCVAVCEVIDHPD-VKCQTKKKDSKEIDRRRA 238
Query: 249 LAQDSLGGEVPHKYYVVENSALVKVKYVLVYTR 281
+ S GG++P KY+VV N+ L++VKY+LVY++
Sbjct: 239 RIKHSEGGDIPPKYFVVTNNQLLRVKYLLVYSQ 271
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 4/53 (7%)
Query: 162 FHGSRLENFHSILNFGLQ----QHFNKNSLFGQGIYLSSQLGICLIYSPYSAG 210
+HGSR NF IL+ GL+ + +FG+GIY + + Y S G
Sbjct: 345 WHGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKGIYFADMVSKSANYCHTSQG 397
>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 = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 163 HGSRLENFHSILNFGLQ----QHFNKNSLFGQGIYLSSQLGICLIYSPYSAG 210
HGSR NF IL+ GL+ + +FG+GIY + + Y S G
Sbjct: 201 HGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKGIYFADMVSKSANYCHTSQG 252
>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 = 2.5, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 163 HGSRLENFHSILNFGLQ----QHFNKNSLFGQGIYLSSQLGICLIYSPYSAG 210
HGSR NF IL+ GL+ + +FG+GIY + + Y S G
Sbjct: 201 HGSRTTNFAGILSQGLRIAPPEAPVTGYMFGKGIYFADMVSKSANYCHTSQG 252
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 0.135 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,764,331
Number of Sequences: 62578
Number of extensions: 344717
Number of successful extensions: 605
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 601
Number of HSP's gapped (non-prelim): 6
length of query: 291
length of database: 14,973,337
effective HSP length: 98
effective length of query: 193
effective length of database: 8,840,693
effective search space: 1706253749
effective search space used: 1706253749
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: 51 (24.3 bits)