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= 048287
(365 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 = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 44/155 (28%), Positives = 70/155 (45%), Gaps = 24/155 (15%)
Query: 45 AEVIALSPKTLMATNRFLCEICGKGFQRDQNLQLHRRGH--NLPWK-------LKQRTSK 95
++ +A +T + C CGK F ++L H+R H P+K QR +
Sbjct: 34 SDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANL 93
Query: 96 EVRKRV------YVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQ 149
+R Y CPE C ++ L ++ H GEK +KC +C K ++ +
Sbjct: 94 RAHQRTHTGEKPYACPE--C-----GKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSRE 146
Query: 150 SDWKAHSKT-CGTREYKC-DCGTVFSRRDSFITHR 182
+ H +T G + YKC +CG FSRRD+ H+
Sbjct: 147 DNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQ 181
Score = 48.1 bits (113), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 55/116 (47%), Gaps = 22/116 (18%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHNLPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRALGD 120
+ C CGK F R +L H+R H ++ Y CPE C ++ D
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTH-------------TGEKPYKCPE--C-----GKSFSD 61
Query: 121 LTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKC-DCGTVFSR 174
+ +H GEK +KC +C K ++ +++ +AH +T G + Y C +CG FS+
Sbjct: 62 KKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQ 117
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 133 GEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKC-DCGTVFSRRDSFITHR 182
GEK + C +C K ++ H +T G + YKC +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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 44/85 (51%), Gaps = 9/85 (10%)
Query: 100 RVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT- 158
+ Y CPE C ++ + ++KH GEK +KC +C K ++ SD + H +T
Sbjct: 3 KPYKCPE--C-----GKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTH 55
Query: 159 CGTREYKC-DCGTVFSRRDSFITHR 182
G + YKC +CG FSR D H+
Sbjct: 56 TGEKPYKCPECGKSFSRSDHLSRHQ 80
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 135 KKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKCD-CGTVFSRRDSFITH 181
+++KC++C K ++ SD H +T G + YKCD CG F +R I H
Sbjct: 17 RRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 59 NRFLCEICGKGFQRDQNLQLHRRGH--NLPWKLKQ 91
R+ C+ CGK F +L HRR H P+K +
Sbjct: 17 RRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDE 51
>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 = 35.4 bits (80), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 37/77 (48%), Gaps = 7/77 (9%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R T + H G+K ++C C + ++ Q+ AH +T
Sbjct: 2 ERPYACPVESC-----DRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRT 56
Query: 159 -CGTREYKCD-CGTVFS 173
G + + CD CG F+
Sbjct: 57 HTGEKPFACDICGRKFA 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 = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 38/80 (47%), Gaps = 7/80 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R D + + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRD 176
G + + CD CG F+R D
Sbjct: 57 HTGEKPFACDICGRKFARSD 76
>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 = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 53/127 (41%), Gaps = 24/127 (18%)
Query: 61 FLCEI--CGKGFQRDQNLQLHRRGHNLPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRAL 118
F+C C K + + +LQ+H R H ++ Y C K C R
Sbjct: 7 FMCAYPGCNKRYFKLSHLQMHSRKH-------------TGEKPYQCDFKDC-----ERRF 48
Query: 119 GDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKC---DCGTVFSR 174
+K+H R G K ++C+ C ++++ K H++T G + + C C F+R
Sbjct: 49 SRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFAR 108
Query: 175 RDSFITH 181
D + H
Sbjct: 109 SDELVRH 115
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 137 WKCEKCSKRYAVQSDWKAHSKT-CGTREYKCD-CGTVFSRRDSFITH 181
+ C+ C KR+ +SD K H+ G + +KC CG FS+ + ITH
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITH 76
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 39/97 (40%), Gaps = 20/97 (20%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHNLPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRALGD 120
F C+ICGK F+R L H H+ R Y C + +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHS-------------DTRPYPCQ-------YCGKRFHQ 41
Query: 121 LTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSK 157
+ +KKH GEK KC+ C K ++ S+ HS+
Sbjct: 42 KSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSR 78
Score = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 63 CEICGKGFQRDQNLQLHRRGHN 84
C++CGK F + NL H R H
Sbjct: 60 CQVCGKAFSQSSNLITHSRKHT 81
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 134 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKC-DCGTVFSRRDSFITHR 182
EK + C +C K ++ S H + G + YKC +CG FS+ I H+
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQ 62
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
+ CE CGKG+ R NL +H+R H
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVH 35
>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 = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 33/82 (40%), Gaps = 24/82 (29%)
Query: 63 CEICGKGFQRDQNLQLHRRGHN--LPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRALGD 120
CE+CGK F R L+ H R H P+K KTC + A D
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKC-----------------KTCDY-----AAAD 48
Query: 121 LTGIKKHFCRKHGEKKWKCEKC 142
+ + KH E+ +KC+ C
Sbjct: 49 SSSLNKHLRIHSDERPFKCQIC 70
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRD 176
G + + CD CG F+R D
Sbjct: 57 HTGEKPFACDICGRKFARSD 76
>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 = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 35/77 (45%), Gaps = 7/77 (9%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R T + H G+K ++C C + ++ + H +T
Sbjct: 2 ERPYACPVESC-----DRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRT 56
Query: 159 -CGTREYKCD-CGTVFS 173
G + + CD CG F+
Sbjct: 57 HTGEKPFACDICGRKFA 73
>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 = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRDSFITH 181
G + + CD CG F+R D H
Sbjct: 57 HTGEKPFACDICGRKFARSDERKRH 81
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
F+CE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 25
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRDSFITH 181
G + + CD CG F+R D H
Sbjct: 57 HTGEKPFACDICGRKFARSDERKRH 81
>pdb|1UBD|C Chain C, Co-Crystal Structure Of Human Yy1 Zinc Finger Domain Bound
To The Adeno-Associated Virus P5 Initiator Element
Length = 124
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 10/86 (11%)
Query: 100 RVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT- 158
R CP K C ++ D + ++KH HG + C +C K + S K H
Sbjct: 4 RTIACPHKGC-----TKMFRDNSAMRKHL-HTHGPRVHVCAECGKAFVESSKLKRHQLVH 57
Query: 159 CGTREYKCD---CGTVFSRRDSFITH 181
G + ++C CG FS + TH
Sbjct: 58 TGEKPFQCTFEGCGKRFSLDFNLRTH 83
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 42/88 (47%), Gaps = 13/88 (14%)
Query: 100 RVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKC--EKCSKRYAVQSDWKAHSK 157
RV+VC E +A + + +K+H GEK ++C E C KR+++ + + H +
Sbjct: 33 RVHVCAE-------CGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVR 85
Query: 158 T-CGTREYKC---DCGTVFSRRDSFITH 181
G R Y C C F++ + +H
Sbjct: 86 IHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
F+CE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEALKRHYRSH 25
>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 = 1.5, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 131 KHGEKKWKCEKCSKRYAVQSDWKAHSKTCGTRE---YKCD-CGTVFSRRDSFITH 181
K GE ++C+ CS+ Y S++ H T R Y C C F+R+D+ H
Sbjct: 5 KEGEHTYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRKDNMTAH 59
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 49/115 (42%), Gaps = 21/115 (18%)
Query: 47 VIALSPKTLMATNRFLCEICGKGFQRDQNLQLHRRGHNLPWKLKQRTSKEVRKRVYVCPE 106
V+ + T ++ E C K + R +NL+ H R H ++ Y+C
Sbjct: 56 VVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSH-------------TGEKPYMCEH 102
Query: 107 KTCVHHHPSRALGDLTGIKKHFCRKHG-EKKWKCE--KCSKRYAVQSDWKAHSKT 158
+ C S+A + + KH R H EK + C+ C+KRY S + H KT
Sbjct: 103 EGC-----SKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKT 152
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 1 ERPYACPVESC-----DRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 55
Query: 159 -CGTREYKCD-CGTVFSRRD 176
G + + CD CG F+R D
Sbjct: 56 HTGEKPFACDICGRKFARSD 75
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRDSFITH 181
G + + CD CG F+R D H
Sbjct: 57 HTGEKPFACDICGRKFARSDERKRH 81
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 36/80 (45%), Gaps = 7/80 (8%)
Query: 99 KRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSDWKAHSKT 158
+R Y CP ++C R + +H G+K ++C C + ++ H +T
Sbjct: 2 ERPYACPVESC-----DRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Query: 159 -CGTREYKCD-CGTVFSRRD 176
G + + CD CG F+R D
Sbjct: 57 HTGEKPFACDICGRKFARSD 76
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 34/76 (44%), Gaps = 7/76 (9%)
Query: 82 GHNLPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEK 141
+N WKL+ SK ++ + C E+ C + L + +H GEK + C+
Sbjct: 14 AYNKNWKLQAHLSKHTGEKPFPCKEEGC-----EKGFTSLHHLTRHSLTHTGEKNFTCDS 68
Query: 142 --CSKRYAVQSDWKAH 155
C R+ +++ K H
Sbjct: 69 DGCDLRFTTKANMKKH 84
>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 = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHN 84
F+C+ CG+ F + NL +H R H
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTHT 41
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 137 WKCEKCSKRYAVQSDWKAHSKT-CGTREYKCD-CGTVFSRRDSFITH 181
+ CE C++ +A Q K H ++ + Y C C F+RRD I H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRH 49
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
F+CE+C + F R ++L+ H R H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSH 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 = 2.5, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 14/17 (82%)
Query: 166 CDCGTVFSRRDSFITHR 182
C+CG VFSR+D ++H+
Sbjct: 16 CECGKVFSRKDQLVSHQ 32
>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
752- 784) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHN 84
+ C +CGK F Q+L +H+R H+
Sbjct: 13 YECSVCGKAFSHRQSLSVHQRIHS 36
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/50 (28%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 134 EKKWKCEKCSKRYAVQSDWKAHSKT-CGTREYKCD-CGTVFSRRDSFITH 181
+K +KC++C + + + +H G + Y+C+ CG F+R + TH
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTH 64
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 29.3 bits (64), Expect = 3.7, Method: Composition-based stats.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
F+CE+C + F R + L+ H R H
Sbjct: 3 FVCEVCTRAFARQEYLKRHYRSH 25
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHN 84
++C+ CGK F + L +HRR H
Sbjct: 11 YVCQECGKAFTQSSCLSIHRRVHT 34
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/109 (22%), Positives = 44/109 (40%), Gaps = 13/109 (11%)
Query: 82 GHNLPWKLKQRTSKEVRKRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEK 141
+N WKL+ K ++ + C E+ C + L + +H GEK + C+
Sbjct: 23 AYNKNWKLQAHLCKHTGEKPFPCKEEGC-----EKGFTSLHHLTRHSLTHTGEKNFTCDS 77
Query: 142 --CSKRYAVQSDWKAHS------KTCGTREYKCDCGTVFSRRDSFITHR 182
C R+ +++ K H K C + +CG F + + H+
Sbjct: 78 DGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQ 126
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHN 84
+ C++CGK F + +LQ H+R H
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRVHT 36
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 78
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 56 MATNRFLCEICGKGFQRDQNLQLHR 80
+A RF CE CGK F++ ++ HR
Sbjct: 34 VAALRFPCEFCGKRFEKPDSVAAHR 58
>pdb|2EOR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
255- 287) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
+ CE CGK F D LQ H+R H
Sbjct: 13 YNCEECGKAFIHDSQLQEHQRIH 35
>pdb|2YSP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
507- 539) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGH 83
+ CE CGKG+ NL +H++ H
Sbjct: 13 YKCEKCGKGYNSKFNLDMHQKVH 35
>pdb|2EMG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
463- 495) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 59 NRFLCEICGKGFQRDQNLQLHRRGH 83
N F+C CGK F NL +H++ H
Sbjct: 11 NPFICSECGKVFTHKTNLIIHQKIH 35
>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 = 28.1 bits (61), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 46/124 (37%), Gaps = 24/124 (19%)
Query: 39 GTPDPEAEVIALSPKTLMATNR-------FLCEICGKGFQRDQNLQLHRRGHNLPWKLKQ 91
G P LS L NR F C CGK + R +NL H +
Sbjct: 7 GVECPTCHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEH----------EA 56
Query: 92 RTSKEVRKRVYVCPEKTCVHHHPSRALGDLTGIKKHFCRKHGEKKWKCEKCSKRYAVQSD 151
R ++V+ C V R +L + H GE +KC CS+++ + D
Sbjct: 57 RNCMNRSEQVFTCS----VCQETFRRRMEL---RLHMVSHTGEMPYKCSSCSQQFMQKKD 109
Query: 152 WKAH 155
++H
Sbjct: 110 LQSH 113
>pdb|2ENC|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
395- 427) Of Human Zinc Finger Protein 224
Length = 46
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 61 FLCEICGKGFQRDQNLQLHRRGHN 84
F CE CGKGF + H+R H+
Sbjct: 13 FKCEECGKGFYTNSQCYSHQRSHS 36
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 66 CGKGFQRDQNLQLHRRGH 83
CGK F R +NL++H+R H
Sbjct: 98 CGKIFARSENLKIHKRTH 115
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 0.131 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,883,220
Number of Sequences: 62578
Number of extensions: 417235
Number of successful extensions: 1284
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 1147
Number of HSP's gapped (non-prelim): 156
length of query: 365
length of database: 14,973,337
effective HSP length: 100
effective length of query: 265
effective length of database: 8,715,537
effective search space: 2309617305
effective search space used: 2309617305
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: 52 (24.6 bits)