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= psy1858
(114 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FRV|A Chain A, Structure Of Human Chmp3 (Residues 1-150)
Length = 152
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 54/85 (63%), Gaps = 2/85 (2%)
Query: 4 LFGR--KITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKI 61
LFG+ + P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ + +
Sbjct: 5 LFGKTQEKPPKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIV 64
Query: 62 MAKDLVRTRKYAKKFMMMKANIQAV 86
+AK+++R+RK K KA++ +V
Sbjct: 65 LAKEMIRSRKAVSKLYASKAHMNSV 89
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 49/76 (64%)
Query: 11 PEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTR 70
P+E++ + + K MR +DR+ + ++++E+K+ +K AK+GQ + ++AK+++R+R
Sbjct: 8 PKELVNEWSLKIRKEMRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEMIRSR 67
Query: 71 KYAKKFMMMKANIQAV 86
K K KA++ +V
Sbjct: 68 KAVSKLYASKAHMNSV 83
>pdb|2GD5|A Chain A, Structural Basis For Budding By The Escrtiii Factor
Chmp3
pdb|2GD5|B Chain B, Structural Basis For Budding By The Escrtiii Factor
Chmp3
pdb|2GD5|C Chain C, Structural Basis For Budding By The Escrtiii Factor
Chmp3
pdb|2GD5|D Chain D, Structural Basis For Budding By The Escrtiii Factor
Chmp3
Length = 179
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 46/76 (60%)
Query: 11 PEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKKMAKEGQMESVKIMAKDLVRTR 70
P+E++ + + K R +DR+ + ++++E+K+ +K AK+GQ + ++AK+ +R+R
Sbjct: 8 PKELVNEWSLKIRKEXRVVDRQIRDIQREEEKVKRSVKDAAKKGQKDVCIVLAKEXIRSR 67
Query: 71 KYAKKFMMMKANIQAV 86
K K KA+ +V
Sbjct: 68 KAVSKLYASKAHXNSV 83
>pdb|1UJS|A Chain A, Solution Structure Of The Villin Headpiece Domain Of
Human Actin-Binding Lim Protein Homologue (Kiaa0843
Protein)
Length = 88
Score = 27.3 bits (59), Expect = 2.0, 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 = 5.2, 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 = 5.2, 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|1F3L|A Chain A, Crystal Structure Of The Conserved Core Of Protein
Arginine Methyltransferase Prmt3
Length = 321
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 23/102 (22%), Positives = 44/102 (43%), Gaps = 19/102 (18%)
Query: 5 FGRKITPEEMLRKNQRALNKAMRDLDREKQHMEQQEKKLIADIKK--------MAKEGQM 56
+G EEML+ R ++ RD + H+ + K++ D+ AK G
Sbjct: 14 YGHYGIHEEMLKDKVR--TESYRDFIYQNPHIFKD--KVVLDVGCGTGILSMFAAKAGAK 69
Query: 57 ESVKI-------MAKDLVRTRKYAKKFMMMKANIQAVSLKIQ 91
+ + + A D++R K +++K I+ VSL ++
Sbjct: 70 KVIAVDQSEILYQAMDIIRLNKLEDTIVLIKGKIEEVSLPVE 111
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
0.318 0.128 0.337
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,462,008
Number of Sequences: 62578
Number of extensions: 70662
Number of successful extensions: 328
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 305
Number of HSP's gapped (non-prelim): 24
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 45 (21.9 bits)