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= 010389
(512 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 = 38.1 bits (87), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 53/141 (37%), Gaps = 22/141 (15%)
Query: 44 DAEVIALSPKTLLATNRFVCEICNKGFQRDQNLQLHRRGHNLPWKLRQRSNKEVKKRVYV 103
D + + +T + C C K F + NL+ H+R H ++ Y
Sbjct: 61 DKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTH-------------TGEKPYA 107
Query: 104 CPEKSCVHHDPTRALGDLTGIKKHFCRKHGEXXXXXXXXXXXYAVQSDYKAHSKV-CGTK 162
CPE ++ L ++ H GE ++ + + H + G K
Sbjct: 108 CPECG-------KSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEK 160
Query: 163 EYKC-NCGAVFSRRDSFITHR 182
YKC CG FSRRD+ H+
Sbjct: 161 PYKCPECGKSFSRRDALNVHQ 181
Score = 35.4 bits (80), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 52/139 (37%), Gaps = 24/139 (17%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH--NLPWK-------------LRQRSNKEVKKRVYVCP 105
+ C C K F R +L H+R H P+K L + ++ Y CP
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
Query: 106 EKSCVHHDPTRALGDLTGIKKHFCRKHGEXXXXXXXXXXXYAVQSDYKAHSKV-CGTKEY 164
E ++ ++ H GE ++ + +AH + G K Y
Sbjct: 82 ECG-------KSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPY 134
Query: 165 KC-NCGAVFSRRDSFITHR 182
KC CG FSR D+ TH+
Sbjct: 135 KCPECGKSFSREDNLHTHQ 153
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 33.9 bits (76), Expect = 0.23, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
FVCE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.5 bits (75), Expect = 0.32, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
FVCE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 33.1 bits (74), Expect = 0.36, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
FVCE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEYLKRHYRSH 25
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 32.7 bits (73), Expect = 0.52, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
FVCE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSH 25
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
+ CE C KG+ R NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35
>pdb|2ELS|A Chain A, Solution Structure Of The 2nd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 30.0 bits (66), Expect = 3.1, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGH 83
F CE CNK F+ +LQ H R H
Sbjct: 10 FTCEYCNKVFKFKHSLQAHLRIH 32
>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 = 29.3 bits (64), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 166 CNCGAVFSRRDSFITHR 182
C CG VFSR+D ++H+
Sbjct: 16 CECGKVFSRKDQLVSHQ 32
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 15/24 (62%), Gaps = 1/24 (4%)
Query: 162 KEYKCN-CGAVFSRRDSFITHRAF 184
K Y+CN CG FS R S TH+A
Sbjct: 11 KPYECNQCGKAFSVRSSLTTHQAI 34
>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 = 9.6, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 61 FVCEICNKGFQRDQNLQLHRRGHN--LPWKLRQRSNKEVKKR 100
F C +C + F+R L+LH H +P+K S + ++K+
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
0.313 0.129 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,401,436
Number of Sequences: 62578
Number of extensions: 368843
Number of successful extensions: 667
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 640
Number of HSP's gapped (non-prelim): 32
length of query: 512
length of database: 14,973,337
effective HSP length: 103
effective length of query: 409
effective length of database: 8,527,803
effective search space: 3487871427
effective search space used: 3487871427
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (25.4 bits)