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= 008103
(577 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 = 56.2 bits (134), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 57/124 (45%), Gaps = 22/124 (17%)
Query: 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGD 65
+ C C K F + NL+ H+R H K Y CPE C ++
Sbjct: 78 YKCPECGKSFSQRANLRAHQRTH-------------TGEKPYACPE--C-----GKSFSQ 117
Query: 66 LTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC-DCGTLFSRRDSF 123
L ++ H GEK +KC +C K ++ + + H +T G + Y+C +CG FSRRD+
Sbjct: 118 LAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDAL 177
Query: 124 ITHR 127
H+
Sbjct: 178 NVHQ 181
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 53/116 (45%), Gaps = 22/116 (18%)
Query: 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGD 65
+ C C K F R +L H+R H K Y CPE C ++ D
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTH-------------TGEKPYKCPE--C-----GKSFSD 61
Query: 66 LTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC-DCGTLFSR 119
+ +H GEK +KC +C K ++ +++ +AH +T G + Y C +CG FS+
Sbjct: 62 KKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQ 117
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 78 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC-DCGTLFSRRDSFITHR 127
GEK + C +C K ++ H +T G + Y+C +CG FS + H+
Sbjct: 18 GEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQ 69
>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 = 45.8 bits (107), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 9/85 (10%)
Query: 45 KVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT- 103
K Y CPE C ++ + ++KH GEK +KC +C K ++ SD + H +T
Sbjct: 3 KPYKCPE--C-----GKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTH 55
Query: 104 CGTREYRC-DCGTLFSRRDSFITHR 127
G + Y+C +CG FSR D H+
Sbjct: 56 TGEKPYKCPECGKSFSRSDHLSRHQ 80
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 40/98 (40%), Gaps = 20/98 (20%)
Query: 6 FICEVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGD 65
+ C C K F + NLQ H+R H K Y CPE C ++
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTH-------------TGEKPYKCPE--C-----GKSFSQ 44
Query: 66 LTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 103
+ ++KH GEK +KC +C K ++ H +T
Sbjct: 45 SSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRT 82
Score = 32.0 bits (71), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 29/51 (56%), Gaps = 2/51 (3%)
Query: 79 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC-DCGTLFSRRDSFITHR 127
EK +KC +C K ++ S+ + H +T G + Y+C +CG FS+ H+
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQ 52
>pdb|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
Length = 119
Score = 36.2 bits (82), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 52/127 (40%), Gaps = 24/127 (18%)
Query: 6 FICEV--CNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRAL 63
F+C CNK + + +LQ+H R H K Y C C R
Sbjct: 7 FMCAYPGCNKRYFKLSHLQMHSRKH-------------TGEKPYQCDFKDC-----ERRF 48
Query: 64 GDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC---DCGTLFSR 119
+K+H R G K ++C+ C ++++ K H++T G + + C C F+R
Sbjct: 49 SRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFAR 108
Query: 120 RDSFITH 126
D + H
Sbjct: 109 SDELVRH 115
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 35.4 bits (80), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 80 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITH 126
+++KC++C K ++ SD H +T G + Y+CD CG F +R I H
Sbjct: 17 RRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 34.3 bits (77), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 42/98 (42%), Gaps = 21/98 (21%)
Query: 9 EVCNKGFQREQNLQLHRRGHNLPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGDLTG 68
E C K + R +NL+ H R H K Y+C C S+A + +
Sbjct: 73 EGCRKSYSRLENLKTHLRSH-------------TGEKPYMCEHEGC-----SKAFSNASD 114
Query: 69 IKKHYSRKHG-EKKWKCE--KCSKRYAVQSDWKAHSKT 103
KH +R H EK + C+ C+KRY S + H KT
Sbjct: 115 RAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKT 152
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 33.9 bits (76), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 7/74 (9%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R T + H G+K ++C C + ++ Q+ AH +T G
Sbjct: 5 YACPVESC-----DRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTG 59
Query: 106 TREYRCD-CGTLFS 118
+ + CD CG F+
Sbjct: 60 EKPFACDICGRKFA 73
>pdb|1A1F|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
pdb|1A1G|A Chain A, Dsnr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
Length = 90
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R D + + +H G+K ++C C + ++ H +T G
Sbjct: 5 YACPVESC-----DRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 106 TREYRCD-CGTLFSRRDSFITH 126
+ + CD CG F+R D H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 32.3 bits (72), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
F+CEVC + F R+++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 82 WKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITH 126
+ CE C++ +A Q K H ++ + Y C C F+RRD I H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRH 49
>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 = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 33/82 (40%), Gaps = 24/82 (29%)
Query: 8 CEVCNKGFQREQNLQLHRRGHN--LPWKLKQKTTKEVKRKVYLCPEPTCVHHDPSRALGD 65
CEVC K F R+ L+ H R H P+K K TC + A D
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCK-----------------TCDY-----AAAD 48
Query: 66 LTGIKKHYSRKHGEKKWKCEKC 87
+ + KH E+ +KC+ C
Sbjct: 49 SSSLNKHLRIHSDERPFKCQIC 70
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 32.0 bits (71), Expect = 1.1, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
F+CEVC + F R++ L+ H R H
Sbjct: 3 FVCEVCTRAFARQEYLKRHYRSH 25
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 82 WKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITH 126
+ C+ C KR+ +SD K H+ G + ++C CG FS+ + ITH
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITH 76
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
F+CEVC + F R+++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 31.6 bits (70), Expect = 1.2, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
F+CEVC + F R++ L+ H R H
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSH 25
>pdb|2LT7|A Chain A, Solution Nmr Structure Of Kaiso Zinc Finger Dna Binding
Domain In Complex With Kaiso Binding Site Dna
pdb|4F6M|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Domain
In Complex With Kaiso Binding Site Dna
pdb|4F6N|A Chain A, Crystal Structure Of Kaiso Zinc Finger Dna Binding Protein
In Complex With Methylated Cpg Site Dna
Length = 133
Score = 31.2 bits (69), Expect = 1.6, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 66 LTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHS-KTCGTREYRC-DCGTLF 117
LT +++H++ EKK+ C C K + + H G R Y+C CG F
Sbjct: 35 LTSLRRHFNIHSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLACGKSF 88
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 79 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRC-DCGTLFSRRDSFITHR 127
EK + C +C K ++ S H + G + Y+C +CG FS+ I H+
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQ 62
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.8 bits (68), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 79 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITH 126
+K +KC++C + + + +H G + YRC+ CG F+R + TH
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTH 64
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
Length = 66
Score = 30.4 bits (67), Expect = 2.9, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 76 KHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTRE---YRCD-CGTLFSRRDSFITH 126
K GE ++C+ CS+ Y S++ H T R Y C C F+R+D+ H
Sbjct: 5 KEGEHTYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAH 59
>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 = 3.8, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 2/80 (2%)
Query: 71 KHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYRCD-CGTLFSRRDSFITHRA 128
+H S G + + C C K++ ++ H K G + Y C+ C F RDSF H
Sbjct: 27 RHMSMHLGLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRHVT 86
Query: 129 FCDALAQESARHQPSLSAIG 148
C + + Q + A G
Sbjct: 87 SCTKSYEAAKAEQNTTEASG 106
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 30.0 bits (66), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 7/58 (12%)
Query: 45 KVYLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCE--KCSKRYAVQSDWKAH 100
K + CP P C + +K H GEK +KCE C +R+A SD K H
Sbjct: 89 KPFPCPFPGC-----GKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKH 141
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX (CLONE
#2)
Length = 90
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 32/74 (43%), Gaps = 7/74 (9%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R T + H G+K ++C C + ++ + H +T G
Sbjct: 5 YACPVESC-----DRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTG 59
Query: 106 TREYRCD-CGTLFS 118
+ + CD CG F+
Sbjct: 60 EKPFACDICGRKFA 73
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R + +H G+K ++C C + ++ H +T G
Sbjct: 5 YACPVESC-----DRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 106 TREYRCD-CGTLFSRRDSFITH 126
+ + CD CG F+R D H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc Site)
Length = 90
Score = 29.3 bits (64), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R + +H G+K ++C C + ++ H +T G
Sbjct: 5 YACPVESC-----DRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 106 TREYRCD-CGTLFSRRDSFITH 126
+ + CD CG F+R D H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 29.3 bits (64), Expect = 6.5, Method: Composition-based stats.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
+ CE C KG+ R NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 28.9 bits (63), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R + +H G+K ++C C + ++ H +T G
Sbjct: 5 YACPVESC-----DRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 106 TREYRCD-CGTLFSRRDSFITH 126
+ + CD CG F+R D H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
>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 = 7.8, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 6 FICEVCNKGFQREQNLQLHRRGH 28
F CE CNK F+ + +LQ H R H
Sbjct: 10 FTCEYCNKVFKFKHSLQAHLRIH 32
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 28.5 bits (62), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 47 YLCPEPTCVHHDPSRALGDLTGIKKHYSRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CG 105
Y CP +C R + +H G+K ++C C + ++ H +T G
Sbjct: 5 YACPVESC-----DRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTG 59
Query: 106 TREYRCD-CGTLFSRRDSFITH 126
+ + CD CG F+R D H
Sbjct: 60 EKPFACDICGRKFARSDERKRH 81
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 0.129 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,991,658
Number of Sequences: 62578
Number of extensions: 381255
Number of successful extensions: 1148
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 1055
Number of HSP's gapped (non-prelim): 123
length of query: 577
length of database: 14,973,337
effective HSP length: 104
effective length of query: 473
effective length of database: 8,465,225
effective search space: 4004051425
effective search space used: 4004051425
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: 54 (25.4 bits)