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= psy11364
(101 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 33.9 bits (76), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKH 99
C CG+ + YNL +H TH + Y C C R +D LR H
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH 64
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCS 87
C CGK S + NLR H TH YAC C
Sbjct: 80 CPECGKSFSQRANLRAHQRTHTGEKPYACPECG 112
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKHDK 101
C CGK S + NL H TH Y C C RDAL H +
Sbjct: 136 CPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQR 182
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKHDK 101
C CGK S++ +L H TH Y C C R LR H +
Sbjct: 52 CPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQR 98
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 18/47 (38%), Gaps = 1/47 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKHDK 101
C CGK S +LR H TH Y C C D L H +
Sbjct: 108 CPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQR 154
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKH 99
C VCGK S + L+ HM H Y C +C + + +L KH
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH 55
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 55 TCFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 99
TC VC + + LR+HM +H Y CSSCS + L+ H
Sbjct: 68 TCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSH 113
>pdb|3UK3|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|3UK3|D Chain D, Crystal Structure Of Znf217 Bound To Dna
pdb|4F2J|C Chain C, Crystal Structure Of Znf217 Bound To Dna, P6522 Crystal
Form
pdb|4IS1|C Chain C, Crystal Structure Of Znf217 Bound To Dna
pdb|4IS1|D Chain D, Crystal Structure Of Znf217 Bound To Dna
Length = 57
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKH 99
C CGK + Y L +H+ TH Y C C + + + +LR H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYH 51
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKHDK 101
C CGK S NL+ H TH Y C C L+KH +
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQR 53
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKHDK 101
C CGK S +L+ H TH Y C C D L +H +
Sbjct: 35 CPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQR 81
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 28.1 bits (61), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 56 CFVCGKQLSNQYNLRVHMETHQN-AFYACSSCSHVSRSRDALRKH 99
C VCGK+ +++L HM+ H Y C+ C+ RD+ +H
Sbjct: 40 CGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRH 84
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 55 TCFVCGKQLSNQYNLRVHMETHQNA-FYACSSCSHVSRSRDALRKH 99
C VC + + Q +L+ H +H N Y C C+ RD L +H
Sbjct: 4 VCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRH 49
>pdb|1QYP|A Chain A, Thermococcus Celer Rpb9, Nmr, 25 Structures
Length = 57
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 55 TCFVCGKQLSNQYNLRVHM-ETHQNAFYACSSCSHVSRS 92
TC CG + + ++ + FY C+ C H RS
Sbjct: 17 TCPKCGNDTAYWWEMQTRAGDEPSTIFYKCTKCGHTWRS 55
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
0.328 0.132 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,756,686
Number of Sequences: 62578
Number of extensions: 31180
Number of successful extensions: 229
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 197
Number of HSP's gapped (non-prelim): 33
length of query: 101
length of database: 14,973,337
effective HSP length: 67
effective length of query: 34
effective length of database: 10,780,611
effective search space: 366540774
effective search space used: 366540774
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)