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= psy11352
(107 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 = 0.025, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CG+ + YNL +H TH + Y C C R +D LR H
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH 64
>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 = 32.3 bits (72), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKHV 98
C VCGK S + L+ HM H Y C +C + + +L KH+
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHL 56
>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 = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CGK S + NL H TH Y C C RDAL H
Sbjct: 136 CPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVH 180
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCS 85
C CGK S + NLR H TH YAC C
Sbjct: 80 CPECGKSFSQRANLRAHQRTHTGEKPYACPECG 112
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 19/45 (42%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CGK S++ +L H TH Y C C R LR H
Sbjct: 52 CPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAH 96
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 17/45 (37%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CGK S +LR H TH Y C C D L H
Sbjct: 108 CPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTH 152
>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 = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 53 TCFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKHV 98
TC VC + + LR+HM +H Y CSSCS + L+ H+
Sbjct: 68 TCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHM 114
>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 = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKHVSYRHP 103
C CGK + Y L +H+ TH Y C C + + + +LR H+ H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHHK 57
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQN-AFYACSSCSHVSRSRDALRKHVS 99
C VCGK+ +++L HM+ H Y C+ C+ RD+ +HV+
Sbjct: 40 CGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRHVT 86
>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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CGK S NL+ H TH Y C C L+KH
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKH 51
Score = 25.8 bits (55), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 18/45 (40%), Gaps = 1/45 (2%)
Query: 54 CFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKH 97
C CGK S +L+ H TH Y C C D L +H
Sbjct: 35 CPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH 79
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 1/51 (1%)
Query: 53 TCFVCGKQLSNQYNLRVHMETHQNAF-YACSSCSHVSRSRDALRKHVSYRH 102
C VC + + Q +L+ H +H N Y C C+ RD L +H H
Sbjct: 4 VCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 22/51 (43%)
Query: 55 FVCGKQLSNQYNLRVHMETHQNAFYACSSCSHVSRSRDALRKHVSYRHPHI 105
F C ++ S ++ R H ET + C C D++ H S HP +
Sbjct: 15 FTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKPDSVAAHRSKSHPAL 65
>pdb|1QYP|A Chain A, Thermococcus Celer Rpb9, Nmr, 25 Structures
Length = 57
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 1/39 (2%)
Query: 53 TCFVCGKQLSNQYNLRVHM-ETHQNAFYACSSCSHVSRS 90
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
0.329 0.134 0.450
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,195,794
Number of Sequences: 62578
Number of extensions: 45308
Number of successful extensions: 242
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 200
Number of HSP's gapped (non-prelim): 45
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
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)