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= 030333
(179 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MHH|C Chain C, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE
pdb|3MHS|C Chain C, Structure Of The Saga Ubp8SGF11SUS1SGF73 DUB MODULE BOUND
Ubiquitin Aldehyde
pdb|3M99|B Chain B, Structure Of The Ubp8-Sgf11-Sgf73-Sus1 Saga Dub Module
pdb|4FJC|C Chain C, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
pdb|4FJC|G Chain G, Structure Of The Saga Ubp8SGF11(1-72, Delta-Znf)SUS1SGF73
DUB Module
pdb|4FK5|C Chain C, Structure Of The Saga Ubp8(S144n)SGF11SUS1SGF73 DUB MODULE
Length = 99
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 24/41 (58%)
Query: 79 VDIFGQTHPAVANEIFECMNCGRSIVAGRFAPHLEKCMGKG 119
+DI G +++ C NCGR + A R A HL++C+ +G
Sbjct: 56 LDINGLQKQQESSQYIHCENCGRDVSANRLAAHLQRCLSRG 96
>pdb|2LO2|A Chain A, Solution Structure Of Sgf11(63-99) Zinc Finger Domain
Length = 38
Score = 36.2 bits (82), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 20/30 (66%)
Query: 90 ANEIFECMNCGRSIVAGRFAPHLEKCMGKG 119
+++ C NCGR + A R A HL++C+ +G
Sbjct: 6 SSQYIHCENCGRDVSANRLAAHLQRCLSRG 35
>pdb|1T1G|A Chain A, High Resolution Crystal Structure Of Mutant E23a Of
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 364
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 57 SAQARARVADSSNNGETNSKYVVDIFGQTHPAVANEIF----ECMNCGRSIVAGRFA 109
S Q RA V S+N G + + V D+ G PA E+ + G S VA FA
Sbjct: 229 SWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFA 285
>pdb|1GT9|1 Chain 1, High Resolution Crystal Structure Of A Thermostable
Serine-Carboxyl Type Proteinase, Kumamolisin (Kscp)
pdb|1GT9|2 Chain 2, High Resolution Crystal Structure Of A Thermostable
Serine-Carboxyl Type Proteinase, Kumamolisin (Kscp)
pdb|1GTG|1 Chain 1, Crystal Structure Of The Thermostable Serine-Carboxyl Type
Proteinase, Kumamolysin
pdb|1GTJ|1 Chain 1, Crystal Structure Of The Thermostable Serine-Carboxyl Type
Proteinase, Kumamolisin (Kscp) - Complex With
Ac-Ile-Ala-Phe-Cho
pdb|1GTJ|2 Chain 2, Crystal Structure Of The Thermostable Serine-Carboxyl Type
Proteinase, Kumamolisin (Kscp) - Complex With
Ac-Ile-Ala-Phe-Cho
pdb|1GTL|1 Chain 1, The Thermostable Serine-Carboxyl Type Proteinase,
Kumamolisin (Kscp) - Complex With Ac-Ile-Pro-Phe-Cho
pdb|1GTL|2 Chain 2, The Thermostable Serine-Carboxyl Type Proteinase,
Kumamolisin (Kscp) - Complex With Ac-Ile-Pro-Phe-Cho
Length = 357
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 57 SAQARARVADSSNNGETNSKYVVDIFGQTHPAVANEIF----ECMNCGRSIVAGRFA 109
S Q RA V S+N G + + V D+ G PA E+ + G S VA FA
Sbjct: 229 SWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFA 285
>pdb|1T1I|A Chain A, High Resolution Crystal Structure Of Mutant W129a Of
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 364
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 26/57 (45%), Gaps = 4/57 (7%)
Query: 57 SAQARARVADSSNNGETNSKYVVDIFGQTHPAVANEIF----ECMNCGRSIVAGRFA 109
S Q RA V S+N G + + V D+ G PA E+ + G S VA FA
Sbjct: 229 SWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEVVIDGETTVIGGTSAVAPLFA 285
>pdb|3E2I|A Chain A, Crystal Structure Of Thymidine Kinase From S. Aureus
Length = 219
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 28/54 (51%), Gaps = 14/54 (25%)
Query: 8 NMSAHSQLSSH--------------FFEDLLDSIIVDVASECHRVARLGLDRNF 47
N+S S++ +H FF+D + SI+ ++++ HRV GLD +F
Sbjct: 87 NISKASEIXTHDLTNVDVIGIDEVQFFDDEIVSIVEKLSADGHRVIVAGLDXDF 140
>pdb|1T1E|A Chain A, High Resolution Crystal Structure Of The Intact Pro-
Kumamolisin, A Sedolisin Type Proteinase (Previously
Called Kumamolysin Or Kscp)
Length = 552
Score = 27.3 bits (59), Expect = 4.5, Method: Composition-based stats.
Identities = 14/37 (37%), Positives = 19/37 (51%)
Query: 57 SAQARARVADSSNNGETNSKYVVDIFGQTHPAVANEI 93
S Q RA V S+N G + + V D+ G PA E+
Sbjct: 417 SWQERANVPPSANPGAGSGRGVPDVAGNADPATGYEV 453
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 0.129 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,073,409
Number of Sequences: 62578
Number of extensions: 115344
Number of successful extensions: 235
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 228
Number of HSP's gapped (non-prelim): 7
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)