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= 038825
(75 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1MX4|A Chain A, Structure Of P18ink4c (F82q)
pdb|1MX4|B Chain B, Structure Of P18ink4c (F82q)
Length = 168
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 28 DLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFKNLIDEKDVKGNTPLH 75
DL D TG+ V+H + A +L+ L L F+ ++ +D +GN PLH
Sbjct: 64 DLKDRTGFAVIHD---AARAGQLDTLQTLLEFQADVNIEDNEGNLPLH 108
>pdb|2V5Q|C Chain C, Crystal Structure Of Wild-type Plk-1 Kinase Domain In
Complex With A Selective Darpin
pdb|2V5Q|D Chain D, Crystal Structure Of Wild-type Plk-1 Kinase Domain In
Complex With A Selective Darpin
Length = 167
Score = 28.9 bits (63), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 33/72 (45%), Gaps = 4/72 (5%)
Query: 4 LLVATSQGHASLVGTIISHYPKCYDLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFKNLI 63
LL A G V +I++ + VD+TG LH VS + + LLK +
Sbjct: 18 LLEAARAGQDDEVRILIANGADV-NAVDNTGLTPLHLAAVSGHLEIVEVLLK---HGADV 73
Query: 64 DEKDVKGNTPLH 75
D DV G TPLH
Sbjct: 74 DAADVYGFTPLH 85
>pdb|1MX6|A Chain A, Structure Of P18ink4c (F92n)
pdb|1MX6|B Chain B, Structure Of P18ink4c (F92n)
Length = 168
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 28 DLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFKNLIDEKDVKGNTPLH 75
DL D TG+ V+H + + L LL++ N+ +D +GN PLH
Sbjct: 64 DLKDRTGFAVIHDAARAGFLDTLQTLLENQADVNI---EDNEGNLPLH 108
>pdb|1WG0|A Chain A, Structural Comparison Of Nas6p Protein Structures In Two
Different Crystal Forms
Length = 243
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 26/64 (40%), Gaps = 8/64 (12%)
Query: 2 TALLVATSQGHASLVGTIISHYPKCYDLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFKN 61
T L A ++GH ++ Y YDLVD+ G LN +K N
Sbjct: 176 TPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKG--------AKAEDVALNEQVKKFFLNN 227
Query: 62 LIDE 65
++D+
Sbjct: 228 VVDK 231
>pdb|1IXV|A Chain A, Crystal Structure Analysis Of Homolog Of Oncoprotein
Gankyrin, An Interactor Of Rb And Cdk46
Length = 231
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 25/63 (39%), Gaps = 8/63 (12%)
Query: 2 TALLVATSQGHASLVGTIISHYPKCYDLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFKN 61
T L A ++GH ++ Y YDLVD+ G LN +K N
Sbjct: 176 TPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKG--------AKAEDVALNEQVKKFFLNN 227
Query: 62 LID 64
++D
Sbjct: 228 VVD 230
>pdb|2DZN|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZN|E Chain E, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|A Chain A, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
pdb|2DZO|C Chain C, Crystal Structure Analysis Of Yeast Nas6p Complexed With
The Proteasome Subunit, Rpt3
Length = 228
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 2 TALLVATSQGHASLVGTIISHYPKCYDLVDDTG 34
T L A ++GH ++ Y YDLVD+ G
Sbjct: 176 TPLFHALAEGHGDAAVLLVEKYGAEYDLVDNKG 208
>pdb|4HQD|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265.
pdb|4HQD|B Chain B, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or265
Length = 169
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 33/76 (43%), Gaps = 6/76 (7%)
Query: 1 MTALLVATSQGHASLVGTIISHYPKCYDLVDDTGWNVLHFLTVSLYAYELNCLLKDLLFK 60
T L A +GH +V +IS + D G LH+ + ++K L+ K
Sbjct: 38 RTPLHYAAKEGHKEIVKLLISKGADV-NAKDSDGRTPLHYAAKEGHKE----IVKLLISK 92
Query: 61 NL-IDEKDVKGNTPLH 75
++ KD G TPLH
Sbjct: 93 GADVNAKDSDGRTPLH 108
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
0.322 0.139 0.428
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,331,897
Number of Sequences: 62578
Number of extensions: 80254
Number of successful extensions: 125
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 121
Number of HSP's gapped (non-prelim): 10
length of query: 75
length of database: 14,973,337
effective HSP length: 44
effective length of query: 31
effective length of database: 12,219,905
effective search space: 378817055
effective search space used: 378817055
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)