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= psy14694
(102 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
K Y C C Y S ++ +H+R H +RP+KC +CPY S + L H D
Sbjct: 35 KPYKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASRNSSQLTVHLRSHTGDS 91
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 52 MRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDEQLRFK 96
++ H+R H G +PYKC C Y + ++L H ++I ++ FK
Sbjct: 24 LKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH--LRIHSDERPFK 66
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 6/49 (12%)
Query: 14 DTEIILQHYKLCSEGARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGD 62
D+ + +H ++ S + + C +CPY + S + H+R+H GD
Sbjct: 48 DSSSLNKHLRI------HSDERPFKCQICPYASRNSSQLTVHLRSHTGD 90
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 31/60 (51%)
Query: 30 RQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQIS 89
+Q R++Y C C +S + +H R H G++PYKC C QR++L+ H V
Sbjct: 12 QQRERRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTG 71
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 40.8 bits (94), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
K Y C C Y G + H H G++PY+C +C + N+ ANL +H + ++
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGEK 72
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 62 DRPYKCFVCPYRSNQRANLMSHPLVQISDEQLR 94
D+PYKC C + NL SH V ++ R
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKPYR 47
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%)
Query: 34 RKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISD 90
K Y C C S + +H R H G++PYKC C +Q + L++H + S
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQRIHTSG 68
>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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 27/59 (45%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISD 90
+ K Y C C + RH R H G++PYKC C +QRANL +H +
Sbjct: 45 TGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGE 103
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 35/88 (39%), Gaps = 7/88 (7%)
Query: 3 KCTHCKVDLNLDTEIILQHYKLCSEGARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGD 62
KC C + D + + +H + + K Y C C +R H R H G+
Sbjct: 51 KCPECGKSFS-DKKDLTRHQRT------HTGEKPYKCPECGKSFSQRANLRAHQRTHTGE 103
Query: 63 RPYKCFVCPYRSNQRANLMSHPLVQISD 90
+PY C C +Q A+L +H +
Sbjct: 104 KPYACPECGKSFSQLAHLRAHQRTHTGE 131
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 25/59 (42%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISD 90
+ K Y C C +R H R H G++PYKC C ++ NL +H +
Sbjct: 101 TGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGE 159
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 27/65 (41%)
Query: 26 SEGARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPL 85
++ A + K Y C C S + H R H G++PYKC C + + +L H
Sbjct: 11 AQAALEPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQR 70
Query: 86 VQISD 90
+
Sbjct: 71 THTGE 75
Score = 29.6 bits (65), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 22/52 (42%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
+ K Y C C + H R H G++PYKC C ++R L H
Sbjct: 129 TGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVH 180
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
S + Y C C R M++H H G++P+KC VC +Q +NL++H
Sbjct: 24 HSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITH 76
Score = 35.8 bits (81), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 27/55 (49%)
Query: 37 YDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
+DC +C S T+ H+ H RPY C C R +Q++++ H + ++
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEK 56
>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 = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
K Y C C S +++H R H G++PYKC C +Q ++L H ++
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEK 59
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 20/39 (51%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ K Y C C S +++H R H G++PYKC C
Sbjct: 28 TGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPEC 66
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double
Cys2His2 Zinc Finger From The Human Enhancer Binding
Protein Mbp-1
Length = 57
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%)
Query: 36 KYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
KY C C R +++HIR H RPY C C + + NL H
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKH 48
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R SG++ RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCP---YRSNQR 77
+ +K + C +C S + HIR H G++P+ C +C RS++R
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDER 78
>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 = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 55 HIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
H+R H G++PYKC C Y + Q+ +L H
Sbjct: 23 HLRTHTGEKPYKCEFCEYAAAQKTSLRYH 51
>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 = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 28/64 (43%), Gaps = 10/64 (15%)
Query: 31 QSSRKKYDCFM--CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPY-----RSNQRANLMSH 83
+ K + C C R +R H+R H GDRPY VCP+ + Q NL SH
Sbjct: 57 HTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPY---VCPFDGCNKKFAQSTNLKSH 113
Query: 84 PLVQ 87
L
Sbjct: 114 ILTH 117
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 24/54 (44%), Gaps = 2/54 (3%)
Query: 39 CFMCPYRTPYSGTMRRHIRAHIGDRPYKCFV--CPYRSNQRANLMSHPLVQISD 90
C C S ++RH H G++P++C C R + NL +H + D
Sbjct: 37 CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGD 90
>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 = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 12 NLDTEIILQHYKLCSEGARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
NLDT I + + +K + C +C ++ HIR H G++P+ C +C
Sbjct: 21 NLDTHIRIH-----------TGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDIC 68
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R + HIR H G +P++C +C +Q+A+L +H
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAH 53
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 24/46 (52%)
Query: 50 GTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDEQLRF 95
G+ R H G++PY+C++C R Q + H L + ++ +F
Sbjct: 1 GSSGSSGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKF 46
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 26 SEGARQSSRKKYDCFMCPYRTPYSGTMRRHI 56
S G S K Y+C++C R SGTM+ HI
Sbjct: 5 SSGRTHSGEKPYECYICHARFTQSGTMKMHI 35
>pdb|1X5W|A Chain A, Solution Structure Of The C2h2 Type Zinc-Binding Domain
Of Human Zinc Finger Protein 64, Isoforms 1 And 2
Length = 70
Score = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 19/33 (57%)
Query: 51 TMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
+R H R H DRP+KC C + + Q +NL H
Sbjct: 24 ALRIHERIHCTDRPFKCNYCSFDTKQPSNLSKH 56
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 32.3 bits (72), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 3/54 (5%)
Query: 31 QSSRKKYDCFM--CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMS 82
+ K Y C C +R S + RH R H G +P++C VC RS R++ ++
Sbjct: 40 HTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCN-RSFSRSDHLA 92
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 49 SGTMRRHIRAHIGDRPYKCFV--CPYRSNQRANLMSH 83
S ++ H+R H G++PYKC C +R + L H
Sbjct: 30 SSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRH 66
>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 = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ +K + C +C S + HIR H G++P+ C +C
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
>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 = 32.3 bits (72), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%)
Query: 33 SRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
S + + C +C +R H+ +H G+ PYKC C + Q+ +L SH
Sbjct: 63 SEQVFTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSH 113
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 19/32 (59%)
Query: 52 MRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
++ H R H G++P++C C ++ NL+ H
Sbjct: 23 LKVHNRKHTGEKPFECPKCGKCYFRKENLLEH 54
>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 = 32.3 bits (72), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCP---YRSNQR 77
+ +K + C +C S + HIR H G++P+ C +C RS++R
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDER 78
>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 = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ +K + C +C S + HIR H G++P+ C +C
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
>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 = 32.0 bits (71), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 11/59 (18%)
Query: 12 NLDTEIILQHYKLCSEGARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
NLDT I + + +K + C +C + +HIR H G++P+ C +C
Sbjct: 21 NLDTHIRIH-----------TGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFACDIC 68
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R + HIR H G +P++C +C +Q L H
Sbjct: 12 CDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQH 53
>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 = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 32 SSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ +K + C +C S + HIR H G++P+ C +C
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 11 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 52
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ +K + C +C S + HIR H G++P+ C +C
Sbjct: 28 HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 67
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCP---YRSNQR 77
K + C +C S + HIR H G++P+ C +C RS++R
Sbjct: 2 KPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDER 47
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 12 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 53
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
+ +K + C +C S + HIR H G++P+ C +C
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDIC 68
>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 = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 23/42 (54%)
Query: 42 CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
C R S + RHIR H G +P++C +C ++ +L +H
Sbjct: 27 CDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 68
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%)
Query: 54 RHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
RH+ H+G RPY C VC + + +L+ H
Sbjct: 27 RHMSMHLGLRPYGCGVCGKKFKMKHHLVGH 56
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 22/47 (46%)
Query: 37 YDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
Y C +C + + H++ H G +PY+C +C R R + H
Sbjct: 38 YGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRH 84
>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 = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 30/64 (46%), Gaps = 2/64 (3%)
Query: 30 RQSSRKKYDCFM--CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQ 87
+ + K Y C C R S ++RH R H G +P++C C + ++ +L +H
Sbjct: 30 KHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRTH 89
Query: 88 ISDE 91
++
Sbjct: 90 TGEK 93
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 19/38 (50%)
Query: 30 RQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKC 67
R + K + C C + S ++ H R H G++P+ C
Sbjct: 60 RHTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSC 97
>pdb|2ELT|A Chain A, Solution Structure Of The 3rd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 28 GARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDR 63
G+ SS K Y C C Y + + H+R H G++
Sbjct: 1 GSSGSSGKPYKCPQCSYASAIKANLNVHLRKHTGEK 36
Score = 25.4 bits (54), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 62 DRPYKCFVCPYRSNQRANLMSH 83
+PYKC C Y S +ANL H
Sbjct: 7 GKPYKCPQCSYASAIKANLNVH 28
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 28.5 bits (62), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 31 QSSRKKYDCFM--CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMS 82
+ K Y C C ++ S + RH R H G RP++C C R+ R++ ++
Sbjct: 30 HTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD-RAFSRSDHLA 82
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 31 QSSRKKYDCFM--CPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMS 82
+ K Y C C ++ S + RH R H G RP++C C R+ R++ ++
Sbjct: 31 HTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCD-RAFSRSDHLA 83
>pdb|2EN4|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
284- 316) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 9/31 (29%), Positives = 19/31 (61%)
Query: 62 DRPYKCFVCPYRSNQRANLMSHPLVQISDEQ 92
++PYKC+ C R+NL +H ++ +++
Sbjct: 10 EKPYKCYECGKAFRTRSNLTTHQVIHTGEKR 40
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/47 (27%), Positives = 23/47 (48%)
Query: 37 YDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
+ C +C ++RH R+H ++PY C +C +R L+ H
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRH 49
>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 = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 18/40 (45%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVC 70
S KKY C C P + +H H G+R Y+C C
Sbjct: 45 HSWEKKYPCRYCEKVFPLAEYRTKHEIHHTGERRYQCLAC 84
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 30 RQSSRKKYDCFMCPYRTPYS--GTMRRHIRAHIGDRPYKC 67
R + K + C R YS ++ H+R+H G++PY C
Sbjct: 61 RHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMC 100
>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 = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 28/62 (45%)
Query: 33 SRKKYDCFMCPYRTPYSGTMRRHIRAHIGDRPYKCFVCPYRSNQRANLMSHPLVQISDEQ 92
++K++ C C S + H R H +RPY C +C ++ +L H + ++
Sbjct: 14 TKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDHRYIHSKEKP 73
Query: 93 LR 94
+
Sbjct: 74 FK 75
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 52 MRRHIRAHIGDRPYKCFVCPYRSNQRANLMSH 83
+ RH +H G++PY C VC R ++ + H
Sbjct: 23 LNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYH 54
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 24/55 (43%), Gaps = 2/55 (3%)
Query: 31 QSSRKKYDCFMCPYRTPYSGTMRRHIRAHIG--DRPYKCFVCPYRSNQRANLMSH 83
S K Y C +C R M H+R+H G +PY C C ++ +L H
Sbjct: 30 HSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSRPDHLNGH 84
>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 = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 62 DRPYKCFVCPYRSNQRANLMSHPLVQISD 90
++PYKC C R Q A+L +H L+
Sbjct: 9 EKPYKCETCGARFVQVAHLRAHVLIHTGS 37
>pdb|2ELQ|A Chain A, Solution Structure Of The 14th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 8/22 (36%), Positives = 15/22 (68%)
Query: 62 DRPYKCFVCPYRSNQRANLMSH 83
+P+KC +C Y + ++NL +H
Sbjct: 7 GKPFKCSLCEYATRSKSNLKAH 28
>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 = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 63 RPYKCFVCPYRSNQRANLMSHPLVQISDEQ 92
+ Y+C C YRS +NL +H + S E+
Sbjct: 1 KTYQCQYCEYRSADSSNLKTHIKTKHSKEK 30
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 26/59 (44%), Gaps = 7/59 (11%)
Query: 40 FMCPYRT-----PYSGTMRRHIRAHIGDRPYKCFV--CPYRSNQRANLMSHPLVQISDE 91
F CP+ S ++ H R H G++P+KC C R ++ H V SD+
Sbjct: 91 FPCPFPGCGKIFARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHMHVHTSDK 149
>pdb|2LVR|A Chain A, Solution Structure Of Miz-1 Zinc Finger 8
Length = 30
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDR 63
K Y C C + G ++RH+R H G++
Sbjct: 2 KPYVCIHCQRQFADPGALQRHVRIHTGEK 30
>pdb|2YTG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
369- 401) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 25.4 bits (54), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 62 DRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
++P+KC C NQR +L H V ++
Sbjct: 10 EKPFKCGECGKSYNQRVHLTQHQRVHTGEK 39
>pdb|2EMH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
491- 523) Of Human Zinc Finger Protein 484
Length = 46
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 62 DRPYKCFVCPYRSNQRANLMSHPLVQISDE 91
+RPY C VC R+NL+ H + ++
Sbjct: 10 ERPYICTVCGKAFTDRSNLIKHQKIHTGEK 39
>pdb|2ELR|A Chain A, Solution Structure Of The 15th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 25.4 bits (54), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 28 GARQSSRKKYDCFMCPYRTPYSGTMRRHIRAHIGD 62
G+ SS K + C MC + GT++ H H D
Sbjct: 1 GSSGSSGKTHLCDMCGKKFKSKGTLKSHKLLHTAD 35
>pdb|2EOS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
626- 654) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 35 KKYDCFMCPYRTPYSGTMRRHIRAHIGDRP 64
K Y C +C R + T++ H+R H G P
Sbjct: 10 KPYPCEICGTRFRHLQTLKSHLRIHTGSGP 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
0.329 0.140 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,854,171
Number of Sequences: 62578
Number of extensions: 97292
Number of successful extensions: 486
Number of sequences better than 100.0: 103
Number of HSP's better than 100.0 without gapping: 95
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 307
Number of HSP's gapped (non-prelim): 184
length of query: 102
length of database: 14,973,337
effective HSP length: 67
effective length of query: 35
effective length of database: 10,780,611
effective search space: 377321385
effective search space used: 377321385
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)