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= 014041
(432 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 35.4 bits (80), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 56/141 (39%), Gaps = 28/141 (19%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGHN--LPWKL---------------KQRTNKEVRKKVYI 106
+ C C K F R +L H+R H P+K QRT+ +K Y
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTH--TGEKPYK 79
Query: 107 CPEKSCVHHDPSRALGDLTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKI-CGTR 165
CPE C ++ ++ H G ++ + +AH + G +
Sbjct: 80 CPE--C-----GKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEK 132
Query: 166 EYRC-DCGTLFSRKDSFITHR 185
Y+C +CG FSR+D+ TH+
Sbjct: 133 PYKCPECGKSFSREDNLHTHQ 153
Score = 35.0 bits (79), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 29/124 (23%), Positives = 49/124 (39%), Gaps = 22/124 (17%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGHNLPWKLKQRTNKEVRKKVYICPEKSCVHHDPSRALGD 123
+ C C K F + NL+ H+R H +K Y CPE C ++
Sbjct: 78 YKCPECGKSFSQRANLRAHQRTH-------------TGEKPYACPE--C-----GKSFSQ 117
Query: 124 LTGIKKHFSRKHGXXXXXXXXXXXXYAVQSDWKAHSKI-CGTREYRC-DCGTLFSRKDSF 181
L ++ H G ++ + + H + G + Y+C +CG FSR+D+
Sbjct: 118 LAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDAL 177
Query: 182 ITHR 185
H+
Sbjct: 178 NVHQ 181
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
F+CE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
F+CE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 2/30 (6%)
Query: 66 CEICNKGFQRDQNLQLHRRGHN--LPWKLK 93
CE+C K F R L+ H R H P+K K
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCK 40
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
F+CE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEYLKRHYRSH 25
>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
355- 385) Of Human Zinc Finger Protein 268
Length = 44
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 169 CDCGTLFSRKDSFITHR 185
C+CG +FSRKD ++H+
Sbjct: 16 CECGKVFSRKDQLVSHQ 32
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 29.3 bits (64), Expect = 3.9, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
F+CE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSH 25
>pdb|2ELS|A Chain A, Solution Structure Of The 2nd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
F CE CNK F+ +LQ H R H
Sbjct: 10 FTCEYCNKVFKFKHSLQAHLRIH 32
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 6.4, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGH 86
+ CE C KG+ R NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35
>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 = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 22/33 (66%), Gaps = 2/33 (6%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGHN--LPWKLKQ 94
+ C+IC+K F+R +L+ HR H+ P+K ++
Sbjct: 46 YTCDICHKAFRRQDHLRDHRYIHSKEKPFKCQE 78
>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 = 28.5 bits (62), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 64 FLCEICNKGFQRDQNLQLHRRGHN--LPWKLKQRTNKEVRKK 103
F C +C + F+R L+LH H +P+K + + ++KK
Sbjct: 67 FTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKK 108
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
0.314 0.128 0.373
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,531,610
Number of Sequences: 62578
Number of extensions: 342351
Number of successful extensions: 774
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 742
Number of HSP's gapped (non-prelim): 33
length of query: 432
length of database: 14,973,337
effective HSP length: 102
effective length of query: 330
effective length of database: 8,590,381
effective search space: 2834825730
effective search space used: 2834825730
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)