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= 019236
(344 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VB9|A Chain A, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
In Monoclinic Form, Northeast Structural Genomics Target
Vpr109
pdb|3VB9|B Chain B, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
In Monoclinic Form, Northeast Structural Genomics Target
Vpr109
pdb|3VB9|C Chain C, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
In Monoclinic Form, Northeast Structural Genomics Target
Vpr109
pdb|3VB9|D Chain D, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus
In Monoclinic Form, Northeast Structural Genomics Target
Vpr109
Length = 483
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 247 NYMELSSALEKMFSCFTIGQCDSHGLPGQDGLSESRLMDLLHGSEYVLTYEDKDGDWM 304
NY EL + T+ + +PG G Y++TY+D DG+W+
Sbjct: 331 NYDELDERAAWFYEAITVSRGXKSTIPG-------------FGQRYLVTYQDSDGNWL 375
>pdb|2P3Y|A Chain A, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus.
Northeast Structural Genomics Target Vpr109
pdb|2P3Y|B Chain B, Crystal Structure Of Vpa0735 From Vibrio Parahaemolyticus.
Northeast Structural Genomics Target Vpr109
Length = 491
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 24/58 (41%), Gaps = 13/58 (22%)
Query: 247 NYMELSSALEKMFSCFTIGQCDSHGLPGQDGLSESRLMDLLHGSEYVLTYEDKDGDWM 304
NY EL + T+ + +PG G Y++TY+D DG+W+
Sbjct: 331 NYDELDERAAWFYEAITVSRGXKSTIPG-------------FGQRYLVTYQDSDGNWL 375
>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
Length = 13
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 10/13 (76%), Positives = 13/13 (100%)
Query: 190 QVVGWPPIRSFRK 202
QVVGWPP+R++RK
Sbjct: 1 QVVGWPPVRNYRK 13
>pdb|1SU3|A Chain A, X-Ray Structure Of Human Prommp-1: New Insights Into
Collagenase Action
pdb|1SU3|B Chain B, X-Ray Structure Of Human Prommp-1: New Insights Into
Collagenase Action
Length = 450
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 121 WGLSINGKPDAELGKGAVLYSPRGGLDDKCKIV 153
+GL + GKPDAE K V+ PR G+ D + V
Sbjct: 52 FGLKVTGKPDAETLK--VMKQPRCGVPDVAQFV 82
>pdb|1XAO|A Chain A, Hsp40-Ydj1 Dimerization Domain
pdb|1XAO|B Chain B, Hsp40-Ydj1 Dimerization Domain
Length = 121
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 279 SESRLMDLLHGSEYVLTYEDKDGDWMLVGDVPWDMFTETCRRLRIMKG 326
+E L+ + G E+ L E GDW+ VG VP ++ R++ KG
Sbjct: 13 AEIDLLTAIAGGEFAL--EHVSGDWLKVGIVPGEVIAPGMRKVIEGKG 58
>pdb|1NLT|A Chain A, The Crystal Structure Of Hsp40 Ydj1
Length = 248
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 25/48 (52%), Gaps = 2/48 (4%)
Query: 279 SESRLMDLLHGSEYVLTYEDKDGDWMLVGDVPWDMFTETCRRLRIMKG 326
+E L+ + G E+ L E GDW+ VG VP ++ R++ KG
Sbjct: 168 AEIDLLTAIAGGEFAL--EHVSGDWLKVGIVPGEVIAPGMRKVIEGKG 213
>pdb|4HC5|A Chain A, Crystal Structure Of Member Of GlyoxalaseBLEOMYCIN
RESISTANCE ProteinDIOXYGENASE SUPERFAMILY FROM
SPHAEROBACTER THERMOPHILUS DSM 20745
pdb|4HC5|B Chain B, Crystal Structure Of Member Of GlyoxalaseBLEOMYCIN
RESISTANCE ProteinDIOXYGENASE SUPERFAMILY FROM
SPHAEROBACTER THERMOPHILUS DSM 20745
pdb|4HC5|C Chain C, Crystal Structure Of Member Of GlyoxalaseBLEOMYCIN
RESISTANCE ProteinDIOXYGENASE SUPERFAMILY FROM
SPHAEROBACTER THERMOPHILUS DSM 20745
pdb|4HC5|D Chain D, Crystal Structure Of Member Of GlyoxalaseBLEOMYCIN
RESISTANCE ProteinDIOXYGENASE SUPERFAMILY FROM
SPHAEROBACTER THERMOPHILUS DSM 20745
Length = 133
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%), Gaps = 2/32 (6%)
Query: 52 ETELRLGLPGSQSPGRKPS--HGLSLFGKDIE 81
+T++ LGLP GRKP G+SL +DI+
Sbjct: 60 QTQVALGLPSWYEDGRKPGGYTGISLITRDID 91
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
0.313 0.133 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,689,542
Number of Sequences: 62578
Number of extensions: 379498
Number of successful extensions: 607
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 603
Number of HSP's gapped (non-prelim): 10
length of query: 344
length of database: 14,973,337
effective HSP length: 100
effective length of query: 244
effective length of database: 8,715,537
effective search space: 2126591028
effective search space used: 2126591028
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)