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= psy13383
(105 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2RGH|A Chain A, Structure Of Alpha-Glycerophosphate Oxidase From
Streptococcus Sp.: A Template For The Mitochondrial
Alpha- Glycerophosphate Dehydrogenase
Length = 571
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 19/72 (26%), Positives = 34/72 (47%)
Query: 9 ITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMTLSTERHVALLL 68
+TPEE+L + + ++ + +I +IKK A++G +S + V L
Sbjct: 157 LTPEEVLEREPFLKKEGLKGAGVYLDFRNNDARLVIDNIKKAAEDGAYLVSKXKAVGFLY 216
Query: 69 EFVIIVGPENRE 80
E IVG + R+
Sbjct: 217 EGDQIVGVKARD 228
>pdb|3FRV|A Chain A, Structure Of Human Chmp3 (Residues 1-150)
Length = 152
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 35/54 (64%), Gaps = 2/54 (3%)
Query: 4 LFGR--KITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQ 55
LFG+ + P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ
Sbjct: 5 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQ 58
>pdb|2RGO|A Chain A, Structure Of Alpha-Glycerophosphate Oxidase From
Streptococcus Sp.: A Template For The Mitochondrial
Alpha- Glycerophosphate Dehydrogenase
pdb|2RGO|B Chain B, Structure Of Alpha-Glycerophosphate Oxidase From
Streptococcus Sp.: A Template For The Mitochondrial
Alpha- Glycerophosphate Dehydrogenase
Length = 607
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%)
Query: 9 ITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMTLSTERHVALLL 68
+TPEE+L + + ++ + +I +IKK A++G +S + V L
Sbjct: 143 LTPEEVLEREPFLKKEGLKGAGVYLDFRNNDARLVIDNIKKAAEDGAYLVSKMKAVGFLY 202
Query: 69 EFVIIVGPENRE 80
E IVG + R+
Sbjct: 203 EGDQIVGVKARD 214
>pdb|3FRT|A Chain A, The Structure Of Human Chmp3 (Residues 8 - 222).
pdb|3FRT|B Chain B, The Structure Of Human Chmp3 (Residues 8 - 222)
Length = 218
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 30/45 (66%)
Query: 11 PEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQ 55
P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ
Sbjct: 8 PKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQ 52
>pdb|1UJS|A Chain A, Solution Structure Of The Villin Headpiece Domain Of
Human Actin-Binding Lim Protein Homologue (Kiaa0843
Protein)
Length = 88
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 2/35 (5%)
Query: 8 KITPEEMLRKNQRALNKAMRDLDREK--QHMEQQE 40
KI P E+L R N+ +D+DR + +H+ Q+E
Sbjct: 18 KIYPYELLLVTTRGRNRLPKDVDRTRLERHLSQEE 52
>pdb|2WN6|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin
Cdta From Clostridium Difficile
Length = 463
Score = 26.2 bits (56), Expect = 4.3, Method: Composition-based stats.
Identities = 12/43 (27%), Positives = 25/43 (58%)
Query: 11 PEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKE 53
PE+ L+ ++A ++ +R +Q +E+ EK+ + KK + E
Sbjct: 56 PEDFLKDKEKAKEWERKEAERIEQKLERSEKEALESYKKDSVE 98
>pdb|2WN4|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin
Cdta From Clostridium Difficile
pdb|2WN5|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin
Cdta From Clostridium Difficile
pdb|2WN7|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin
Cdta From Clostridium Difficile
pdb|2WN8|A Chain A, Structural Basis For Substrate Recognition In The
Enzymatic Component Of Adp-Ribosyltransferase Toxin
Cdta From Clostridium Difficile
Length = 463
Score = 26.2 bits (56), Expect = 4.4, Method: Composition-based stats.
Identities = 12/43 (27%), Positives = 25/43 (58%)
Query: 11 PEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKE 53
PE+ L+ ++A ++ +R +Q +E+ EK+ + KK + E
Sbjct: 56 PEDFLKDKEKAKEWERKEAERIEQKLERSEKEALESYKKDSVE 98
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
0.319 0.134 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,706,328
Number of Sequences: 62578
Number of extensions: 84560
Number of successful extensions: 293
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 279
Number of HSP's gapped (non-prelim): 18
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
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)