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= 030923
(169 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D2N|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 1 And 2
Domain
Length = 83
Score = 31.6 bits (70), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 14/21 (66%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 7 VCRAFQRGECTRGDG-CKFSH 26
VCR FQRG C+R D CKF+H
Sbjct: 11 VCREFQRGTCSRPDTECKFAH 31
>pdb|2RPP|A Chain A, Solution Structure Of Tandem Zinc Finger Domain 12 In
Muscleblind-Like Protein 2
Length = 89
Score = 30.8 bits (68), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 14/21 (66%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 7 VCRAFQRGECTRGD-GCKFSH 26
VCR FQRG C+R D CKF+H
Sbjct: 19 VCRQFQRGTCSRSDEECKFAH 39
>pdb|2E5S|A Chain A, Solution Structure Of The Zf-Ccchx2 Domain Of
Muscleblind- Like 2, Isoform 1 [homo Sapiens]
Length = 98
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 7 VCRAFQRGECTRGDG-CKFSH 26
VCR FQRG C RG+ C+F+H
Sbjct: 22 VCREFQRGNCARGETDCRFAH 42
>pdb|3D2Q|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2Q|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain
pdb|3D2S|A Chain A, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|B Chain B, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|C Chain C, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
pdb|3D2S|D Chain D, Crystal Structure Of Mbnl1 Tandem Zinc Finger 3 And 4
Domain In Complex With Cgcugu Rna
Length = 70
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 16/21 (76%), Gaps = 1/21 (4%)
Query: 7 VCRAFQRGECTRGDG-CKFSH 26
VCR +QRG C RG+ C+F+H
Sbjct: 8 VCREYQRGNCNRGENDCRFAH 28
>pdb|2RHK|C Chain C, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
pdb|2RHK|D Chain D, Crystal Structure Of Influenza A Ns1a Protein In Complex
With F2f3 Fragment Of Human Cellular Factor Cpsf30,
Northeast Structural Genomics Targets Or8c And Hr6309a
Length = 72
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 3 EERGVCRAFQRGECTRGDGCKFSH 26
E+ VC+ + RG C +GD C+F H
Sbjct: 14 EKTVVCKHWLRGLCKKGDQCEFLH 37
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 28.1 bits (61), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 3 EERGVCRAFQRGECTRGDGCKFSH 26
E+ VC+ + RG C +GD C+F H
Sbjct: 8 EKTVVCKHWLRGLCKKGDQCEFLH 31
>pdb|3FQD|A Chain A, Crystal Structure Of The S. Pombe Rat1-Rai1 Complex
Length = 899
Score = 26.6 bits (57), Expect = 6.4, Method: Composition-based stats.
Identities = 19/59 (32%), Positives = 29/59 (49%), Gaps = 10/59 (16%)
Query: 101 GRRED---KRSRRHSDNNEFEARSREDHYRRDEKRPKRHESESYLREDQDRRGGDKSST 156
G +ED KR ++ D R ++YRR ++R ESESY+ +R + ST
Sbjct: 391 GNQEDDIFKRLKQQEDR-------RNENYRRRQQRESNQESESYVDNVVIQRSVETQST 442
>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 = 26.2 bits (56), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 7 VCRAFQRGECTRGDGCKFSH 26
+C + G C G+ CKF+H
Sbjct: 22 ICDRYMNGTCPEGNSCKFAH 41
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
0.311 0.129 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,700,227
Number of Sequences: 62578
Number of extensions: 238955
Number of successful extensions: 349
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 308
Number of HSP's gapped (non-prelim): 40
length of query: 169
length of database: 14,973,337
effective HSP length: 92
effective length of query: 77
effective length of database: 9,216,161
effective search space: 709644397
effective search space used: 709644397
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: 48 (23.1 bits)