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= 025253
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2YUM|A Chain A, Solution Structure Of The Myb-Like Dna-Binding Domain Of
Human Zzz3 Protein
Length = 75
Score = 33.9 bits (76), Expect = 0.097, Method: Composition-based stats.
Identities = 19/42 (45%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 62 WTPEEQSILEDLLAKYASDSAVN-RYAKIAKQLKDKTVRDVA 102
WT EEQ LE LL KY + + R+ KIA +L ++T + VA
Sbjct: 11 WTVEEQKKLEQLLIKYPPEEVESRRWQKIADELGNRTAKQVA 52
>pdb|2M2E|A Chain A, Solution Nmr Structure Of The Sant Domain Of Human Dnajc2,
Northeast Structural Genomics Consortium Target Hr8254a
Length = 73
Score = 32.7 bits (73), Expect = 0.22, Method: Composition-based stats.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 3/71 (4%)
Query: 60 TEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDVALRCRWMTKKENGKRRKE 119
T WT EEQ +LE L Y ++ R+ KIA+ + +T +D R + + + K+ +
Sbjct: 4 TPWTTEEQKLLEQALKTYPVNTP-ERWKKIAEAVPGRTKKDCMKRYKELVEMVKAKKAAQ 62
Query: 120 DH--NSARKNK 128
+ N++R K
Sbjct: 63 EQVLNASRAKK 73
>pdb|2ZXQ|A Chain A, Crystal Structure Of Endo-Alpha-N-Acetylgalactosaminidase
From Bifidobacterium Longum (Engbf)
Length = 1376
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 52 LRHNS--GISTEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKD 95
+R NS G+S W +Q + D + AS S V+R+A ++K++ D
Sbjct: 418 VRRNSAGGLSYGWNWLDQGVGIDGIYDLASGSRVSRFADLSKEVGD 463
>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
Myb1 Protein From Protozoan Parasite Trichomonas
Vaginalis
pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
From Protozoan Parasite Trichomonas Vaginalis In Complex
With Mre-1MRE-2r Dna
Length = 107
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 32/55 (58%), Gaps = 8/55 (14%)
Query: 55 NSGISTE-WTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDVALRCRWM 108
N + T+ W+PEE +L+ A+Y ++ KI+K LK+++ D +R RWM
Sbjct: 48 NPALRTDPWSPEEDMLLDQKYAEYGP-----KWNKISKFLKNRS--DNNIRNRWM 95
>pdb|1A76|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
pdb|1A77|A Chain A, Flap Endonuclease-1 From Methanococcus Jannaschii
Length = 326
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/52 (26%), Positives = 27/52 (51%), Gaps = 2/52 (3%)
Query: 174 GITGDILEQNAQMFNQISANFGTFQIRDNIDLLCKA--RENILSIMNDLNDM 223
G+ D+L++ + +++I F ++ DN L K +E I+ + D ND
Sbjct: 245 GVAKDVLKKEVEYYDEIKRIFKEPKVTDNYSLSLKLPDKEGIIKFLVDENDF 296
>pdb|2CU7|A Chain A, Solution Structure Of The Sant Domain Of Human Kiaa1915
Protein
Length = 72
Score = 28.5 bits (62), Expect = 3.3, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 61 EWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKTVRDVALRCRWMTKKE 112
+WT EE+ + E LAK+ R+ KI+K + +TV V R K +
Sbjct: 11 KWTIEEKELFEQGLAKFG-----RRWTKISKLIGSRTVLQVKSYARQYFKNK 57
>pdb|1R8W|A Chain A, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R8W|B Chain B, Native Structure Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|A Chain A, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9D|B Chain B, Glycerol Bound Form Of The B12-Independent Glycerol
Dehydratase From Clostridium Butyricum
pdb|1R9E|A Chain A, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
pdb|1R9E|B Chain B, Structure Of The B12-Independent Glycerol Dehydratase With
1,2-Propanediol Bound
Length = 787
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 27/46 (58%)
Query: 52 LRHNSGISTEWTPEEQSILEDLLAKYASDSAVNRYAKIAKQLKDKT 97
L N I ++ +E+ + +++ A+ + VNRYAK AK++ D T
Sbjct: 188 LEKNRSIDPDFIKKEKFLNSVIISCEAAITYVNRYAKKAKEIADNT 233
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
0.310 0.125 0.350
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,735,223
Number of Sequences: 62578
Number of extensions: 244220
Number of successful extensions: 498
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 496
Number of HSP's gapped (non-prelim): 12
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 50 (23.9 bits)