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= psy4412
(39 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 = 35.0 bits (79), Expect = 0.011, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
YAC C S H+ +H R HTGEKP+ CP
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYKCP 53
Score = 34.7 bits (78), Expect = 0.013, Method: Composition-based stats.
Identities = 16/32 (50%), Positives = 18/32 (56%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
YAC C H+R H R HTGEKP+ CP
Sbjct: 106 YACPECGKSFSQLAHLRAHQRTHTGEKPYKCP 137
Score = 32.0 bits (71), Expect = 0.094, Method: Composition-based stats.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C C ++R H R HTGEKP+ CP
Sbjct: 78 YKCPECGKSFSQRANLRAHQRTHTGEKPYACP 109
Score = 28.9 bits (63), Expect = 0.74, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C C ++ H R HTGEKP+ CP
Sbjct: 134 YKCPECGKSFSREDNLHTHQRTHTGEKPYKCP 165
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C C + + H R HTGEKP+ CP
Sbjct: 50 YKCPECGKSFSDKKDLTRHQRTHTGEKPYKCP 81
>pdb|1LLM|C Chain C, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
pdb|1LLM|D Chain D, Crystal Structure Of A Zif23-Gcn4 Chimera Bound To Dna
Length = 88
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 34
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 19/33 (57%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD SG + HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSQSGSLTRHIRIHTGQKPFQC 37
>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 = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSRSAELTRHIRIHTGQKPFQC 37
>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 = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSRSADLTRHIRIHTGQKPFQC 37
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD +S ++ HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSDSSNLTRHIRIHTGQKPFQC 37
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 34 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 64
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 36
>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 = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPF---VCPF 39
Y C CDY +S + H+R H+ E+PF +CP+
Sbjct: 37 YKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPY 72
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGE 32
+ C C Y + NS + H+R HTG+
Sbjct: 65 FKCQICPYASRNSSQLTVHLRSHTGD 90
>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 = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 37
>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 = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C C S +++ H R HTGEKP+ CP
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCP 36
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C C S ++ H R HTGEKP+ CP
Sbjct: 33 YKCPECGKSFSQSSDLQKHQRTHTGEKPYKCP 64
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 33.9 bits (76), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 18/31 (58%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + S H+ HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFAC 65
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 37
>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 = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 17/31 (54%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C S H++ H R HTGEKPF C
Sbjct: 67 FQCKTCQRKFSRSDHLKTHTRTHTGEKPFSC 97
Score = 30.0 bits (66), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 12 CDYHTLNSGHMRDHIRRHTGEKPFVCPF 39
C+ H++ H R+HTGEKP+ C F
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDF 41
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 12 CDYHTLNSGHMRDHIRRHTGEKPFVC 37
C+ S ++ H RRHTG KPF C
Sbjct: 44 CERRFSRSDQLKRHQRRHTGVKPFQC 69
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 32.7 bits (73), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YACLW--CDYHTLNSGHMRDHIRRHTGEKPFVC 37
Y C W CD+ S + H R+HTG KPF C
Sbjct: 46 YKCTWEGCDWRFARSDELTRHYRKHTGAKPFQC 78
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 18 NSGHMRDHIRRHTGEKPFVCPF 39
S H++ H+R HTGEKP+ C +
Sbjct: 29 KSSHLKAHLRTHTGEKPYKCTW 50
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From
The Human Zinc Finger Protein Zic 3
Length = 155
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/16 (81%), Positives = 14/16 (87%)
Query: 24 DHIRRHTGEKPFVCPF 39
+HIR HTGEKPF CPF
Sbjct: 80 NHIRVHTGEKPFPCPF 95
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 19 SGHMRDHIRRHTGEKPFVCPF 39
S +++ H R HTGEKPF C F
Sbjct: 105 SENLKIHKRTHTGEKPFKCEF 125
>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 = 32.0 bits (71), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 17/19 (89%)
Query: 21 HMRDHIRRHTGEKPFVCPF 39
++R H+R HTG++P+VCPF
Sbjct: 79 NLRTHVRIHTGDRPYVCPF 97
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 6 LYACLWCDYHTLNSGHMRDHIRRHTGEKPFVCPF 39
++ C C + S ++ H HTGEKPF C F
Sbjct: 34 VHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTF 67
>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 = 32.0 bits (71), Expect = 0.090, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 19/30 (63%)
Query: 9 CLWCDYHTLNSGHMRDHIRRHTGEKPFVCP 38
C C L+ +++ H R+HTGEKPF CP
Sbjct: 10 CPTCHKKFLSKYYLKVHNRKHTGEKPFECP 39
>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 = 31.2 bits (69), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + + HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSQQASLNAHIRTHTGEKPFAC 65
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD ++ HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQC 37
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 16/28 (57%)
Query: 12 CDYHTLNSGHMRDHIRRHTGEKPFVCPF 39
C S H++ H R HTGEKPF C +
Sbjct: 25 CGKTYFKSSHLKAHTRTHTGEKPFSCSW 52
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound
To Dna
Length = 73
Score = 30.0 bits (66), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD S + HIR HTG+KPF C
Sbjct: 20 YACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 52
>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 = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 19/31 (61%)
Query: 9 CLWCDYHTLNSGHMRDHIRRHTGEKPFVCPF 39
C +C ++ ++ H+R HTGEKP+ C F
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKPYKCEF 37
>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 = 0.48, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C + + HIR HTGEKPF C
Sbjct: 35 FQCRICMRNFSQHTGLNQHIRTHTGEKPFAC 65
Score = 28.5 bits (62), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 7 YAC--LWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
YAC CD ++ HIR HTG+KPF C
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQC 37
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
Y C+ C S + H R HTGEKP+ C
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKC 45
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 18 NSGHMRDHIRRHTGEKPFVCPF 39
S H++ H+R HTGEKP+ C +
Sbjct: 19 KSSHLKAHLRTHTGEKPYHCDW 40
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 7 YACLW--CDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C W C + S + H R+HTG +PF C
Sbjct: 36 YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQ 69
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 16/22 (72%)
Query: 18 NSGHMRDHIRRHTGEKPFVCPF 39
S H++ H+R HTGEKP+ C +
Sbjct: 20 KSSHLKAHLRTHTGEKPYHCDW 41
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 2/34 (5%)
Query: 7 YACLW--CDYHTLNSGHMRDHIRRHTGEKPFVCP 38
Y C W C + S + H R+HTG +PF C
Sbjct: 37 YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQ 70
>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 = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C S H++ H R HTGEKP
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRVHTGEKP 40
>pdb|2ELT|A Chain A, Solution Structure Of The 3rd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEK 33
Y C C Y + ++ H+R+HTGEK
Sbjct: 10 YKCPQCSYASAIKANLNVHLRKHTGEK 36
>pdb|2LVR|A Chain A, Solution Structure Of Miz-1 Zinc Finger 8
Length = 30
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEK 33
Y C+ C + G ++ H+R HTGEK
Sbjct: 4 YVCIHCQRQFADPGALQRHVRIHTGEK 30
>pdb|5ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
Protein Zfy: 2d Nmr Structure Of An Even Finger And
Implications For "jumping-Linker" Dna Recognition
Length = 30
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 7 YACLWCDYHTLNSGHMRDHIR-RHTGEK 33
Y C +C+Y + +S +++ HI+ +H+ EK
Sbjct: 3 YQCQYCEYRSADSSNLKTHIKTKHSKEK 30
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 25 HIRRHTGEKPFVCPF 39
H+RRHTGEKP C F
Sbjct: 58 HMRRHTGEKPHKCTF 72
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 22 MRDHIRRHTGEKPFVC 37
++ H+R HTGEKP++C
Sbjct: 85 LKTHLRSHTGEKPYMC 100
>pdb|2EM3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
640- 672) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 13/28 (46%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C H+ H + HTGEKP
Sbjct: 13 YECKVCSKAFTQKAHLAQHQKTHTGEKP 40
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
Y C C +S + H R HTGEKP+ C
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKPYKC 49
>pdb|2EMM|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
544- 576) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
+ C C + S H+ H R HTGEKP
Sbjct: 13 HKCNECGKSFIQSAHLIQHQRIHTGEKP 40
>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 = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
Y C C H+RDH H+ EKPF C
Sbjct: 46 YTCDICHKAFRRQDHLRDHRYIHSKEKPFKC 76
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C +C H S ++ H R HT E+P+ C
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTHTDERPYTC 48
>pdb|2YTS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
715- 747) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C + H+ H R HTGEKP
Sbjct: 13 YICNECGKSFIQKSHLNRHRRIHTGEKP 40
>pdb|1KLR|A Chain A, Nmr Structure Of The Zfy-6t[y10f] Zinc Finger
Length = 30
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 7 YACLWCDYHTLNSGHMRDHIR-RHTGEK 33
Y C +C++ + +S +++ HI+ +H+ EK
Sbjct: 3 YQCQYCEFRSADSSNLKTHIKTKHSKEK 30
>pdb|2ELQ|A Chain A, Solution Structure Of The 14th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 17/27 (62%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEK 33
+ C C+Y T + +++ H+ RH+ EK
Sbjct: 10 FKCSLCEYATRSKSNLKAHMNRHSTEK 36
>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 = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C ++ +++H R HTGEKP
Sbjct: 13 YNCEECGKAFIHDSQLQEHQRIHTGEKP 40
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
+ C C H++ H R HT EKP+ C
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPC 33
>pdb|2YTH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
479- 511) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 14/28 (50%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
+ C C + H+ H R HTGEKP
Sbjct: 13 FQCEECGKRFTQNSHLHSHQRVHTGEKP 40
>pdb|1XF7|A Chain A, High Resolution Nmr Structure Of The Wilms' Tumor
Suppressor Protein (Wt1) Finger 3
Length = 29
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEK 33
+ C C S H++ H R HTGEK
Sbjct: 3 FQCKTCQRKFSRSDHLKTHTRTHTGEK 29
>pdb|2EMK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
668- 700) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 14/28 (50%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C + H+ H R HTGEKP
Sbjct: 13 YECKECGKAFSQTTHLIQHQRVHTGEKP 40
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
Y C C G++ H HTGEKP+ C
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRC 48
>pdb|2EM2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
584- 616) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
+ C C + H+ H+R HTGEKP
Sbjct: 13 FKCKECGKAFRQNIHLASHLRIHTGEKP 40
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 22 MRDHIRRHTGEKPFVCP 38
++ H+ +HTGEKPF C
Sbjct: 21 LQAHLSKHTGEKPFPCK 37
>pdb|2YTK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
396- 428) Of Human Zinc Finger Protein 347
Length = 46
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C + H+ +H R HTGEKP
Sbjct: 13 YKCNECGKVFTQNSHLTNHWRIHTGEKP 40
>pdb|2EOH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
780- 812) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEK 33
Y C C + GH+ H R HTGE+
Sbjct: 13 YECKECRKTFIQIGHLNQHKRVHTGER 39
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 15/34 (44%)
Query: 4 TYLYACLWCDYHTLNSGHMRDHIRRHTGEKPFVC 37
T Y C +C M+ H HTGEKP C
Sbjct: 27 TRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKC 60
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 8 ACLWCDYHTLNSGHMRDHIRRHTGEKPFVCPF 39
AC C + H+ H H+GEKP+ CP
Sbjct: 9 ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPV 40
>pdb|2EN9|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
415- 447) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 14/29 (48%)
Query: 6 LYACLWCDYHTLNSGHMRDHIRRHTGEKP 34
L+ C C S + H R HTGEKP
Sbjct: 12 LFKCNECKKTFTQSSSLTVHQRIHTGEKP 40
>pdb|2M0F|A Chain A, Solution Structure Of Miz-1 Zinc Finger 7
Length = 29
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 9 CLWCDYHTLNSGHMRDHIRRHTGEK 33
C C SG+++ H+R H+GEK
Sbjct: 5 CRECGKQFTTSGNLKRHLRIHSGEK 29
>pdb|2EOG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
693- 723) Of Human Zinc Finger Protein 268
Length = 44
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C + ++ H+R HTGEKP
Sbjct: 11 YGCSECGKAFRSKSYLIIHMRTHTGEKP 38
>pdb|1XRZ|A Chain A, Nmr Structure Of A Zinc Finger With Cyclohexanylalanine
Substituted For The Central Aromatic Residue
Length = 30
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 7 YACLWCDYHTLNSGHMRDHIR-RHTGEK 33
Y C +C+ + +S +++ HI+ +H+ EK
Sbjct: 3 YQCQYCEXRSADSSNLKTHIKTKHSKEK 30
>pdb|1KLS|A Chain A, Nmr Structure Of The Zfy-6t[y10l] Zinc Finger
Length = 30
Score = 25.4 bits (54), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 7 YACLWCDYHTLNSGHMRDHIR-RHTGEK 33
Y C +C+ + +S +++ HI+ +H+ EK
Sbjct: 3 YQCQYCELRSADSSNLKTHIKTKHSKEK 30
>pdb|2EN2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
598- 626) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 7 YACLWCDYHTLNSGHMRDHIRRHTGEKP 34
Y C C + H+R H+ HTG P
Sbjct: 12 YKCETCGARFVQVAHLRAHVLIHTGSGP 39
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
0.331 0.145 0.557
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,370,522
Number of Sequences: 62578
Number of extensions: 30452
Number of successful extensions: 295
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 62
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 188
Number of HSP's gapped (non-prelim): 110
length of query: 39
length of database: 14,973,337
effective HSP length: 13
effective length of query: 26
effective length of database: 14,159,823
effective search space: 368155398
effective search space used: 368155398
T: 11
A: 40
X1: 15 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.9 bits)
S2: 45 (21.9 bits)