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= 026840
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RGO|A Chain A, Structural Basis For Recognition Of The Mrna Class Ii
Au- Rich Element By The Tandem Zinc Finger Domain Of
Tis11d
Length = 70
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 57 VCSRFVKTGFCPFGDSCKYLH 77
+C F GFCP+G C ++H
Sbjct: 46 LCRTFHTIGFCPYGPRCHFIH 66
>pdb|2D9M|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 3 In
Zinc Finger Ccch-Type Domain Containing 7a
Length = 69
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%), Gaps = 4/28 (14%)
Query: 53 FPKG---VCSRFVKTGFCPFGDSCKYLH 77
FP G +C R++ G CP G+SCK+ H
Sbjct: 15 FPTGYFSICDRYM-NGTCPEGNSCKFAH 41
>pdb|1PRE|A Chain A, Proaerolysin
pdb|1PRE|B Chain B, Proaerolysin
Length = 470
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 41 SLNETNQTYPDGFPKGVCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
L + + +YP F V +GF +G + Y HP N P N
Sbjct: 296 ELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWN 340
>pdb|3C0M|A Chain A, Crystal Structure Of The Proaerolysin Mutant Y221g
pdb|3C0M|B Chain B, Crystal Structure Of The Proaerolysin Mutant Y221g
pdb|3C0N|A Chain A, Crystal Structure Of The Proaerolysin Mutant Y221g At 2.2
A
pdb|3C0N|B Chain B, Crystal Structure Of The Proaerolysin Mutant Y221g At 2.2
A
pdb|3C0O|A Chain A, Crystal Structure Of The Proaerolysin Mutant Y221g
Complexed With Mannose-6-Phosphate
pdb|3C0O|B Chain B, Crystal Structure Of The Proaerolysin Mutant Y221g
Complexed With Mannose-6-Phosphate
Length = 470
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 41 SLNETNQTYPDGFPKGVCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
L + + +YP F V +GF +G + Y HP N P N
Sbjct: 296 ELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWN 340
>pdb|3G4N|A Chain A, Crystal Structure Of The Activated Aerolysin Mutant H132d
pdb|3G4N|B Chain B, Crystal Structure Of The Activated Aerolysin Mutant H132d
Length = 470
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 41 SLNETNQTYPDGFPKGVCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
L + + +YP F V +GF +G + Y HP N P N
Sbjct: 296 ELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWN 340
>pdb|3G4O|A Chain A, Crystal Structure Of The Activated Aerolysin Mutant H132n
pdb|3G4O|B Chain B, Crystal Structure Of The Activated Aerolysin Mutant H132n
Length = 470
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 41 SLNETNQTYPDGFPKGVCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
L + + +YP F V +GF +G + Y HP N P N
Sbjct: 296 ELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWN 340
>pdb|1Z52|A Chain A, Proaerolysin Mutant W373l
pdb|1Z52|B Chain B, Proaerolysin Mutant W373l
Length = 470
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 20/45 (44%)
Query: 41 SLNETNQTYPDGFPKGVCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
L + + +YP F V +GF +G + Y HP N P N
Sbjct: 296 ELYKADISYPYEFKADVSYDLTLSGFLRWGGNAWYTHPDNRPNWN 340
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 27.3 bits (59), Expect = 7.1, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 57 VCSRFVKTGFCPFGDSCKYLHPKNNPAQN 85
+C +F G CP+G C ++H NP ++
Sbjct: 52 LCHKFKLQGRCPYGSRCHFIH---NPTED 77
>pdb|3CW1|L Chain L, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|9 Chain 9, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|0 Chain 0, Crystal Structure Of Human Spliceosomal U1 Snrnp
pdb|3CW1|LL Chain l, Crystal Structure Of Human Spliceosomal U1 Snrnp
Length = 77
Score = 26.9 bits (58), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%), Gaps = 1/30 (3%)
Query: 3 LGKYYCDYCDKQF-QDTYFARKRHLQGIQH 31
+ K+YCDYCD D+ RK H G +H
Sbjct: 1 MPKFYCDYCDTYLTHDSPSVRKTHCSGRKH 30
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
0.323 0.136 0.461
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,288,650
Number of Sequences: 62578
Number of extensions: 277239
Number of successful extensions: 497
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 487
Number of HSP's gapped (non-prelim): 13
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)