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= psy12731
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DZJ|A Chain A, 2dzjSOLUTION STRUCTURE OF THE N-Terminal Ubiquitin-Like
Domain In Human Synaptic Glycoprotein Sc2
Length = 88
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%)
Query: 2 EVSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDVKSLGLKNGDMVFIKDL 61
+V T+ +IK K Q YP RQ++RL+ KGK LKD D ++ L + ++ +DL
Sbjct: 29 KVEPHATIAEIKNLFTKTHPQWYPARQSLRLDPKGKSLKDEDVLQKLPVGTTATLYFRDL 88
>pdb|1WX7|A Chain A, Solution Structure Of The N-Terminal Ubiquitin-Like
Domain In The Human Ubiquilin 3 (Ubqln3)
Length = 106
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 35/56 (62%), Gaps = 3/56 (5%)
Query: 3 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDVKSLGLKNGDMVFI 58
V+ + T++ +K+E+ + + + +PD+ + L GKILKD D + G+++G V +
Sbjct: 33 VTDTCTIQQLKEEISQ-RFKAHPDQ--LVLIFAGKILKDPDSLAQCGVRDGLTVHL 85
>pdb|1YQB|A Chain A, Human Ubiquilin 3
Length = 100
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 35/56 (62%), Gaps = 3/56 (5%)
Query: 3 VSGSFTVKDIKKEVHKAKSQLYPDRQAVRLEIKGKILKDSDDVKSLGLKNGDMVFI 58
V+ + T++ +K+E+ + + + +PD+ + L GKILKD D + G+++G V +
Sbjct: 38 VTDTCTIQQLKEEISQ-RFKAHPDQ--LVLIFAGKILKDPDSLAQCGVRDGLTVHL 90
>pdb|3JYH|A Chain A, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|B Chain B, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|C Chain C, Human Dipeptidyl Peptidase Dpp7
pdb|3JYH|D Chain D, Human Dipeptidyl Peptidase Dpp7
pdb|3N0T|A Chain A, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|B Chain B, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|C Chain C, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
pdb|3N0T|D Chain D, Human Dipeptidil Peptidase Dpp7 Complexed With Inhibitor
Gsk237826a
Length = 469
Score = 29.3 bits (64), Expect = 0.54, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 59 KDLGPQIGWSTVFMAEYAGPLFVYLIFYYRPWIFYGSEAASKPYSYVA 106
+DLG Q + F Y G L YL Y P + G+ AAS P VA
Sbjct: 124 RDLGAQDAPAIAFGGSYGGMLSAYLRMKY-PHLVAGALAASAPVLAVA 170
>pdb|4EBB|A Chain A, Structure Of Dpp2
pdb|4EBB|B Chain B, Structure Of Dpp2
Length = 472
Score = 28.9 bits (63), Expect = 0.67, Method: Composition-based stats.
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 59 KDLGPQIGWSTVFMAEYAGPLFVYLIFYYRPWIFYGSEAASKPYSYVA 106
+DLG Q + F Y G L YL Y P + G+ AAS P VA
Sbjct: 121 RDLGAQDAPAIAFGGSYGGXLSAYLRXKY-PHLVAGALAASAPVLAVA 167
>pdb|3M62|B Chain B, Crystal Structure Of Ufd2 In Complex With The
Ubiquitin-Like (Ubl) Domain Of Rad23
Length = 106
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 19/31 (61%)
Query: 26 DRQAVRLEIKGKILKDSDDVKSLGLKNGDMV 56
+ ++L GK+L+DS V GLK+GD V
Sbjct: 38 EESQIKLIYSGKVLQDSKTVSECGLKDGDQV 68
>pdb|2NYG|A Chain A, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|B Chain B, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|C Chain C, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|D Chain D, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|E Chain E, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|F Chain F, Crystal Structure Of Yokd Protein From Bacillus Subtilis
Length = 273
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 42 SDDVKSLGLKNGDMVFIKDLGPQIGW 67
++D+K+LGLK G V + IGW
Sbjct: 19 TEDLKALGLKKGMTVLVHSSLSSIGW 44
>pdb|4GLX|A Chain A, Dna Ligase A In Complex With Inhibitor
Length = 586
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 34 IKGKILKDSDDVKSLGLKNGDMVFIK---DLGPQI 65
+ L ++D+++ LGL+ GD V I+ D+ PQ+
Sbjct: 353 VSNATLHNADEIERLGLRIGDKVVIRRAGDVIPQV 387
>pdb|2OWO|A Chain A, Last Stop On The Road To Repair: Structure Of E.Coli Dna
Ligase Bound To Nicked Dna-Adenylate
Length = 671
Score = 26.6 bits (57), Expect = 3.7, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 22/35 (62%), Gaps = 3/35 (8%)
Query: 34 IKGKILKDSDDVKSLGLKNGDMVFIK---DLGPQI 65
+ L ++D+++ LGL+ GD V I+ D+ PQ+
Sbjct: 353 VSNATLHNADEIERLGLRIGDKVVIRRAGDVIPQV 387
>pdb|3N0S|A Chain A, Crystal Structure Of Ba2930 Mutant (H183a) In Complex
With Accoa
pdb|3N0S|D Chain D, Crystal Structure Of Ba2930 Mutant (H183a) In Complex
With Accoa
pdb|3N0S|C Chain C, Crystal Structure Of Ba2930 Mutant (H183a) In Complex
With Accoa
pdb|3N0S|B Chain B, Crystal Structure Of Ba2930 Mutant (H183a) In Complex
With Accoa
Length = 268
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 42 SDDVKSLGLKNGDMVFIKDLGPQIGW 67
++D++ LGLK G V + IGW
Sbjct: 21 TNDLRKLGLKKGXTVIVHSSLSSIGW 46
>pdb|3IJW|A Chain A, Crystal Structure Of Ba2930 In Complex With Coa
pdb|3IJW|B Chain B, Crystal Structure Of Ba2930 In Complex With Coa
pdb|3SLF|A Chain A, Crystal Structure Of Ba2930 In Complex With Accoa And
Uracil
pdb|3SLF|B Chain B, Crystal Structure Of Ba2930 In Complex With Accoa And
Uracil
Length = 268
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 42 SDDVKSLGLKNGDMVFIKDLGPQIGW 67
++D++ LGLK G V + IGW
Sbjct: 21 TNDLRKLGLKKGXTVIVHSSLSSIGW 46
>pdb|3E4F|A Chain A, Crystal Structure Of Ba2930- A Putative Aminoglycoside
N3- Acetyltransferase From Bacillus Anthracis
pdb|3E4F|B Chain B, Crystal Structure Of Ba2930- A Putative Aminoglycoside
N3- Acetyltransferase From Bacillus Anthracis
Length = 265
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 42 SDDVKSLGLKNGDMVFIKDLGPQIGW 67
++D++ LGLK G V + IGW
Sbjct: 18 TNDLRKLGLKKGXTVIVHSSLSSIGW 43
>pdb|3KZL|A Chain A, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3KZL|D Chain D, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3KZL|C Chain C, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3KZL|B Chain B, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3N0M|A Chain A, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3N0M|B Chain B, Crystal Structure Of Ba2930 Mutant (H183g) In Complex
With Accoa
pdb|3SLB|A Chain A, Crystal Structure Of Ba2930 In Complex With Accoa And
Cytosine
pdb|3SLB|D Chain D, Crystal Structure Of Ba2930 In Complex With Accoa And
Cytosine
pdb|3SLB|C Chain C, Crystal Structure Of Ba2930 In Complex With Accoa And
Cytosine
pdb|3SLB|B Chain B, Crystal Structure Of Ba2930 In Complex With Accoa And
Cytosine
Length = 268
Score = 25.4 bits (54), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 42 SDDVKSLGLKNGDMVFIKDLGPQIGW 67
++D++ LGLK G V + IGW
Sbjct: 21 TNDLRKLGLKKGXTVIVHSSLSSIGW 46
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 0.138 0.412
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,274,489
Number of Sequences: 62578
Number of extensions: 123523
Number of successful extensions: 333
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 321
Number of HSP's gapped (non-prelim): 22
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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: 45 (21.9 bits)