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= 041494
(279 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 = 34.3 bits (77), Expect = 0.088, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 19/24 (79%), Gaps = 1/24 (4%)
Query: 6 KKDLCRNFQR-GSCQYGERCKFLH 28
K +LCR F+ G+C+YGE+C+F H
Sbjct: 5 KTELCRPFEESGTCKYGEKCQFAH 28
Score = 32.3 bits (72), Expect = 0.31, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 3 PYKKKDLCRNFQR-GSCQYGERCKFLH 28
P K +LCR F G C YG RC F+H
Sbjct: 40 PKYKTELCRTFHTIGFCPYGPRCHFIH 66
>pdb|2E5S|A Chain A, Solution Structure Of The Zf-Ccchx2 Domain Of
Muscleblind- Like 2, Isoform 1 [homo Sapiens]
Length = 98
Score = 30.8 bits (68), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 1 MMPYKKKDLCRNFQRGSCQYGER-CKFLH 28
++ K ++CR FQRG+C GE C+F H
Sbjct: 14 LLRTDKLEVCREFQRGNCARGETDCRFAH 42
>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 = 30.0 bits (66), Expect = 1.3, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 5 KKKDLCRNFQRGSCQYGERCKFLH 28
+K +C+++ RG C+ G++C+FLH
Sbjct: 14 EKTVVCKHWLRGLCKKGDQCEFLH 37
>pdb|1M9O|A Chain A, Nmr Structure Of The First Zinc Binding Domain Of
Nup475TTPTIS11
Length = 77
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 3 PYKKKDLCRNFQ-RGSCQYGERCKFLH 28
P K +LC F+ +G C YG RC F+H
Sbjct: 46 PKYKTELCHKFKLQGRCPYGSRCHFIH 72
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%), Gaps = 1/24 (4%)
Query: 6 KKDLCRNF-QRGSCQYGERCKFLH 28
K +LCR + + G C+YG +C+F H
Sbjct: 11 KTELCRTYSESGRCRYGAKCQFAH 34
>pdb|2D9N|A Chain A, Solution Structure Of Ccch Type Zinc-Finger Domain 2 In
Cleavage And Polyadenylation Specificity Factor
Length = 77
Score = 29.3 bits (64), Expect = 2.3, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 19/24 (79%)
Query: 5 KKKDLCRNFQRGSCQYGERCKFLH 28
+K +C+++ RG C+ G++C+FLH
Sbjct: 8 EKTVVCKHWLRGLCKKGDQCEFLH 31
>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 = 29.3 bits (64), Expect = 2.6, Method: Composition-based stats.
Identities = 11/22 (50%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 8 DLCRNFQRGSCQYGER-CKFLH 28
++CR +QRG+C GE C+F H
Sbjct: 7 EVCREYQRGNCNRGENDCRFAH 28
>pdb|2RPP|A Chain A, Solution Structure Of Tandem Zinc Finger Domain 12 In
Muscleblind-Like Protein 2
Length = 89
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%), Gaps = 1/22 (4%)
Query: 8 DLCRNFQRGSC-QYGERCKFLH 28
++CR FQRG+C + E CKF H
Sbjct: 18 EVCRQFQRGTCSRSDEECKFAH 39
>pdb|3P2A|A Chain A, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
pdb|3P2A|B Chain B, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
pdb|3P2A|C Chain C, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
pdb|3P2A|D Chain D, Crystal Structure Of Thioredoxin 2 From Yersinia Pestis
Length = 148
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 12/51 (23%)
Query: 148 DDAKCGSSLHSIVERERNLLNSNLMKFDNLLRN----------PYTGPCNS 188
D AKCG HS+ + E ++N+ D LL++ P+ GPC S
Sbjct: 24 DGAKCGRCGHSLFDGE--VINATAETLDKLLQDDLPXVIDFWAPWCGPCRS 72
>pdb|2P8E|A Chain A, Crystal Structure Of The SerineTHREONINE PHOSPHATASE
Domain Of Human Ppm1b
pdb|2P8E|B Chain B, Crystal Structure Of The SerineTHREONINE PHOSPHATASE
Domain Of Human Ppm1b
Length = 307
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 4/41 (9%)
Query: 140 EELRAAAYDDAKCGSSLHSIVERERNLLNSNLMKFDNLLRN 180
E+ RAA K GS+L VE +N + + +K D +RN
Sbjct: 85 EDFRAAG----KSGSALELSVENVKNGIRTGFLKIDEYMRN 121
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
0.317 0.133 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,476,763
Number of Sequences: 62578
Number of extensions: 347322
Number of successful extensions: 559
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 551
Number of HSP's gapped (non-prelim): 14
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)