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= psy16601
(177 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 = 1e-08, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 62/137 (45%), Gaps = 13/137 (9%)
Query: 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ- 104
GE +ACP+C K++ R L H R G++P +KCP C K K +L H +
Sbjct: 18 GEKPYACPECGKSFSRSDHLAEHQRTHTGEKP-YKCPECGKSFSDKKDLTRHQRTHTGEK 76
Query: 105 -LLAPLAPRSYRRNSQLNG---------SFICPKCSNRYVYKHNLKQHLKFECGVEPQFK 154
P +S+ + + L + CP+C + +L+ H + G +P +K
Sbjct: 77 PYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKP-YK 135
Query: 155 CPYCDKRCKLKGNLMSH 171
CP C K + NL +H
Sbjct: 136 CPECGKSFSREDNLHTH 152
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/147 (27%), Positives = 65/147 (44%), Gaps = 26/147 (17%)
Query: 25 SDLLNLITNKRTASSSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHC 84
SD +L ++RT + GE + CP+C K++ ++ L AH R G++P + CP C
Sbjct: 60 SDKKDLTRHQRTHT-------GEKPYKCPECGKSFSQRANLRAHQRTHTGEKP-YACPEC 111
Query: 85 NKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
K Q +L++H +R + CP+C + + NL H +
Sbjct: 112 GKSFSQLAHLRAH-----------------QRTHTGEKPYKCPECGKSFSREDNLHTHQR 154
Query: 145 FECGVEPQFKCPYCDKRCKLKGNLMSH 171
G +P +KCP C K + L H
Sbjct: 155 THTGEKP-YKCPECGKSFSRRDALNVH 180
Score = 34.7 bits (78), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%), Gaps = 7/48 (14%)
Query: 29 NLITNKRTASSSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKR 76
NL T++RT + GE + CP+C K++ R+ LN H R GK+
Sbjct: 148 NLHTHQRTHT-------GEKPYKCPECGKSFSRRDALNVHQRTHTGKK 188
>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 = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 38/133 (28%), Positives = 59/133 (44%), Gaps = 16/133 (12%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
+G CP C K +L +Y L H R G++P F+CP C KC + L+H+
Sbjct: 3 SGSSGVECPTCHKKFLSKYYLKVHNRKHTGEKP-FECPKCG-----KCYFRKENLLEHE- 55
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKL 164
A R+ Q+ F C C + + L+ H+ G P +KC C ++
Sbjct: 56 -----ARNCMNRSEQV---FTCSVCQETFRRRMELRLHMVSHTGEMP-YKCSSCSQQFMQ 106
Query: 165 KGNLMSHIALKHT 177
K +L SH+ H+
Sbjct: 107 KKDLQSHMIKLHS 119
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 42/103 (40%), Gaps = 19/103 (18%)
Query: 43 KPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPK--FKCPHCNKKCHQKCNLKSHIAL 100
K GE F CPKC K Y R+ L H C R + F C C + ++ L+ H+
Sbjct: 29 KHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMELRLHMVS 88
Query: 101 KHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHL 143
++ + C CS +++ K +L+ H+
Sbjct: 89 HTGEM-----------------PYKCSSCSQQFMQKKDLQSHM 114
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/58 (43%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 45 AGEDVFAC--PKCSKTYLRQYTLNAHLRYECGKRPKFKCPH--CNKKCHQKCNLKSHI 98
GE F C C K + + L H+R G RP + CP CNKK Q NLKSHI
Sbjct: 58 TGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRP-YVCPFDGCNKKFAQSTNLKSHI 114
Score = 31.2 bits (69), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 125 ICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPY--CDKRCKLKGNLMSHIAL 174
+C +C +V LK+H G +P F+C + C KR L NL +H+ +
Sbjct: 36 VCAECGKAFVESSKLKRHQLVHTGEKP-FQCTFEGCGKRFSLDFNLRTHVRI 86
Score = 29.6 bits (65), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 3/46 (6%)
Query: 129 CSNRYVYKHNLKQHLKFECGVEPQFKCPY--CDKRCKLKGNLMSHI 172
C R+ NL+ H++ G P + CP+ C+K+ NL SHI
Sbjct: 70 CGKRFSLDFNLRTHVRIHTGDRP-YVCPFDGCNKKFAQSTNLKSHI 114
>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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 18/98 (18%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLL 106
E + CP+C K++ + L H R G++P +KCP C K Q +L+ H
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQRTHTGEKP-YKCPECGKSFSQSSDLQKH--------- 51
Query: 107 APLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
+R + CP+C + +L +H +
Sbjct: 52 --------QRTHTGEKPYKCPECGKSFSRSDHLSRHQR 81
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%), Gaps = 8/62 (12%)
Query: 25 SDLLNLITNKRTASSSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHC 84
S NL ++RT + GE + CP+C K++ + L H R G++P +KCP C
Sbjct: 15 SQSSNLQKHQRTHT-------GEKPYKCPECGKSFSQSSDLQKHQRTHTGEKP-YKCPEC 66
Query: 85 NK 86
K
Sbjct: 67 GK 68
Score = 33.9 bits (76), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 18/93 (19%)
Query: 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHN 138
+KCP C K Q NL+ H +R + CP+C + +
Sbjct: 5 YKCPECGKSFSQSSNLQKH-----------------QRTHTGEKPYKCPECGKSFSQSSD 47
Query: 139 LKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSH 171
L++H + G +P +KCP C K +L H
Sbjct: 48 LQKHQRTHTGEKP-YKCPECGKSFSRSDHLSRH 79
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLR 70
GE + CP+C K++ R L+ H R
Sbjct: 56 TGEKPYKCPECGKSFSRSDHLSRHQR 81
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 1/51 (1%)
Query: 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
F C C K++ R TL+ HL RP + C +C K+ HQK ++K H +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRP-YPCQYCGKRFHQKSDMKKHTFI 51
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/78 (28%), Positives = 37/78 (47%), Gaps = 11/78 (14%)
Query: 109 LAPRSYRRNSQLNGSFI---------CPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCD 159
+ +S++R+S L+ + C C R+ K ++K+H G +P KC C
Sbjct: 6 ICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPH-KCQVCG 64
Query: 160 KRCKLKGNLMSHIALKHT 177
K NL++H + KHT
Sbjct: 65 KAFSQSSNLITH-SRKHT 81
>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 = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 1/57 (1%)
Query: 46 GEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKH 102
G C C K + Y LN HLR G++P +KC C QK +L+ H+ H
Sbjct: 1 GSSSRECSYCGKFFRSNYYLNIHLRTHTGEKP-YKCEFCEYAAAQKTSLRYHLERHH 56
>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 = 35.0 bits (79), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKK 87
G+ F C C + + +Q +LNAH+R G++P F C C +K
Sbjct: 30 TGQKPFQCRICMRNFSQQASLNAHIRTHTGEKP-FACDICGRK 71
Score = 33.5 bits (75), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 41/101 (40%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + ++ L+ H+R G++P F+C C + Q+ +L +HI
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQCRICMRNFSQQASLNAHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ H +H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFATLHTRTRHTKI 84
>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 = 33.5 bits (75), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 27/52 (51%), Gaps = 1/52 (1%)
Query: 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIALK 175
+IC +C R LK+H++ V P + C YC+ K KGNL H+ K
Sbjct: 2 YICEECGIRXKKPSMLKKHIRTHTDVRP-YHCTYCNFSFKTKGNLTKHMKSK 52
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 33.1 bits (74), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 14/73 (19%)
Query: 70 RYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKC 129
R G++P + C HC+K QK L H HD P A F+C KC
Sbjct: 8 RTHTGEKP-YACSHCDKTFRQKQLLDMHFKRYHDPNFVPAA-------------FVCSKC 53
Query: 130 SNRYVYKHNLKQH 142
+ ++ + +H
Sbjct: 54 GKTFTRRNTMARH 66
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 32.7 bits (73), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 124 FICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHI 172
+ C C ++ KH+L H+K G++P ++C C KR + + H+
Sbjct: 38 YGCGVCGKKFKMKHHLVGHMKIHTGIKP-YECNICAKRFMWRDSFHRHV 85
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 128 KCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIAL 174
+C + +K +H+ G+ P + C C K+ K+K +L+ H+ +
Sbjct: 14 QCGKSFTHKSQRDRHMSMHLGLRP-YGCGVCGKKFKMKHHLVGHMKI 59
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSH 97
E + C +C K + R L H R G++P +KC C K Q L +H
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKP-YKCLECGKAFSQNSGLINH 61
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 1/68 (1%)
Query: 36 TASSSEDKPAGEDVFACPKCSKTYLRQYTLNAH-LRYECGKRPKFKCPHCNKKCHQKCNL 94
++ SS +GE + C C + + T+ H L+ KF CPHC+ +K +L
Sbjct: 2 SSGSSGRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDL 61
Query: 95 KSHIALKH 102
H+ +H
Sbjct: 62 GVHLRKQH 69
Score = 26.2 bits (56), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 16/75 (21%)
Query: 70 RYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKC 129
R G++P ++C C+ + Q +K HI KH + +A F CP C
Sbjct: 8 RTHSGEKP-YECYICHARFTQSGTMKMHILQKHTENVAK---------------FHCPHC 51
Query: 130 SNRYVYKHNLKQHLK 144
K +L HL+
Sbjct: 52 DTVIARKSDLGVHLR 66
>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 = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + ++ L+ H+R G++P F+C C + Q L HI
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKP-FQCRICMRNFSQHTGLNQHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ H +H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFATLHTRDRHTKI 84
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKK 87
G+ F C C + + + LN H+R G++P F C C +K
Sbjct: 30 TGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKP-FACDICGRK 71
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 21/89 (23%)
Query: 75 KRPKFKCP--HCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNR 132
+RP + CP C+++ QK NL +HI + Q F C C
Sbjct: 2 ERP-YACPVESCDRRFSQKTNLDTHIRIHTGQ-----------------KPFQCRICMRN 43
Query: 133 YVYKHNLKQHLKFECGVEPQFKCPYCDKR 161
+ L QH++ G +P F C C ++
Sbjct: 44 FSQHTGLNQHIRTHTGEKP-FACDICGRK 71
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/100 (23%), Positives = 37/100 (37%), Gaps = 16/100 (16%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
+G AC C K + Y LN H G++P + CP C + +K + H+
Sbjct: 3 SGSSGVACEICGKIFRDVYHLNRHKLSHSGEKP-YSCPVCGLRFKRKDRMSYHVRSHDGS 61
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
+ P +IC C + +L H+K
Sbjct: 62 VGKP---------------YICQSCGKGFSRPDHLNGHIK 86
>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 = 30.4 bits (67), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 33/72 (45%), Gaps = 3/72 (4%)
Query: 52 CPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ--LLAPL 109
C C K + R+ L H+R G +P +KC C+ +L H+ + D+ +
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKP-YKCKTCDYAAADSSSLNKHLRIHSDERPFKCQI 69
Query: 110 APRSYRRNSQLN 121
P + R +SQL
Sbjct: 70 CPYASRNSSQLT 81
Score = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 117 NSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIAL 174
+S +G C C + K LK H++ GV+P +KC CD +L H+ +
Sbjct: 2 SSGSSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKP-YKCKTCDYAAADSSSLNKHLRI 58
>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 = 30.4 bits (67), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 28/82 (34%), Positives = 38/82 (46%), Gaps = 9/82 (10%)
Query: 29 NLITNKRTASSSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKC 88
NL+ ++RT ++++P + C C K + RQ L H RY K FKC C K
Sbjct: 32 NLLIHERT--HTDERP-----YTCDICHKAFRRQDHLRDH-RYIHSKEKPFKCQECGKGF 83
Query: 89 HQKCNLKSHIALKHDQLLAPLA 110
Q L H L H Q +P A
Sbjct: 84 CQSRTLAVHKTL-HMQTSSPTA 104
>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 = 30.4 bits (67), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKH 102
F C C + + R L H+R G++P F C C +K + K H ++H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHRDIQH 55
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 30.0 bits (66), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 50 FACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSH 97
+ C +C K++ L+ H R G++P +KC C K Q+ +L H
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKP-YKCDECGKAFIQRSHLIGH 65
>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 = 29.6 bits (65), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 84
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
>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 = 29.6 bits (65), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
>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 = 29.6 bits (65), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 84
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 29.6 bits (65), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E F C C KTY L+ H R G RP+ CP C K + + H+ + ++
Sbjct: 2 ERPFFCNFCGKTYRDASGLSRHRRAHLGYRPR-SCPECGKCFRDQSEVNRHLKVHQNK 58
>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 = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 84
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/101 (22%), Positives = 39/101 (38%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + + +L H+R G++P F+C C + + +L +HI
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 84
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 45 AGEDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPH--CNKKCHQKCNLKSHIAL 100
GE F CP C K + R L H R G++P FKC C+++ + K H+ +
Sbjct: 86 TGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKP-FKCEFEGCDRRFANSSDRKKHMHV 144
Score = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 52 CPKCSKTYLRQYTLNAHLRYECGKRPKFKCPH--CNKKCHQKCNLKSH 97
CP+ K++ +Y L H+R G++P F CP C K + NLK H
Sbjct: 65 CPREGKSFKAKYKLVNHIRVHTGEKP-FPCPFPGCGKIFARSENLKIH 111
>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 = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 29 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 83
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 53
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 54 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 83
>pdb|2WBT|A Chain A, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
pdb|2WBT|B Chain B, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
Length = 129
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 118 SQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSHIALKH 176
S+ F+CP C + +LKQH+++ E CP C K + + H+ KH
Sbjct: 69 SKAISQFVCPLCLMPFSSSVSLKQHIRY---TEHTKVCPVCKKEFTSTDSALDHVCKKH 124
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 25/56 (44%), Gaps = 1/56 (1%)
Query: 45 AGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIAL 100
G+ F C C + + R L H+R G++P F C C +K + K H +
Sbjct: 30 TGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHTKI 84
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 38/101 (37%), Gaps = 20/101 (19%)
Query: 47 EDVFACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQ 104
E +ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI------ 54
Query: 105 LLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKF 145
R F C C ++ K+H K
Sbjct: 55 -----------RTHTGEKPFACDICGRKFARSDERKRHTKI 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 = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 60/135 (44%), Gaps = 22/135 (16%)
Query: 39 SSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHI 98
+SE +P + A P C+K Y + L H R G++P ++C K C ++ +
Sbjct: 1 ASEKRPF---MCAYPGCNKRYFKLSHLQMHSRKHTGEKP-YQCD--FKDCERRFS----- 49
Query: 99 ALKHDQLLAPLAPRSYRRNSQLNGSFICPKCSNRYVYKHNLKQHLKFECGVEPQFKC--P 156
+ DQL R RR++ + F C C ++ +LK H + G +P F C P
Sbjct: 50 --RSDQL-----KRHQRRHTGVK-PFQCKTCQRKFSRSDHLKTHTRTHTGEKP-FSCRWP 100
Query: 157 YCDKRCKLKGNLMSH 171
C K+ L+ H
Sbjct: 101 SCQKKFARSDELVRH 115
>pdb|2EMY|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
551- 583) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E+ + C +C K + R+Y L +H R G++P
Sbjct: 10 ENPYECHECGKAFSRKYQLISHQRTHAGEKP 40
>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 = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 50 FACP--KCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHI 98
+ACP C + + R L H+R G++P F+C C + + +L +HI
Sbjct: 20 YACPVESCDRRFSRSDELTRHIRIHTGQKP-FQCRICMRNFSRSDHLTTHI 69
>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
887- 919) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C +C KT+ ++ L+AH R G++P
Sbjct: 10 EKPYGCNECGKTFSQKSILSAHQRTHTGEKP 40
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 53 PKCSKTYLRQYTLNAHLRYECGKRPKFKC 81
P C KTY + L AH R G++P F C
Sbjct: 23 PGCGKTYFKSSHLKAHTRTHTGEKP-FSC 50
>pdb|2EMF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
379- 411) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 50 FACPKCSKTYLRQYTLNAHLRYECGKRP 77
F C +C K + R+ TL+ H + G++P
Sbjct: 13 FECTECGKAFTRKSTLSMHQKIHTGEKP 40
>pdb|2GQJ|A Chain A, Solution Structure Of The Two Zf-C2h2 Like
Domains(493-575) Of Human Zinc Finger Protein Kiaa1196
Length = 98
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 114 YRRNSQLNGSFICPKCSNRYVYKH--NLKQHLKFECGVEPQFKCPYCDKRCKLKGNLMSH 171
++R G +CP C N K LK+H++ ++ KC +C K+ K K L H
Sbjct: 15 WQRAIHERGEAVCPTC-NVVTRKTLVGLKKHMEVCQKLQDALKCQHCRKQFKSKAGLNYH 73
Query: 172 IALKHT 177
+H+
Sbjct: 74 TMAEHS 79
>pdb|2M0E|A Chain A, Solution Structure Of Miz-1 Zinc Finger 6
Length = 29
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 17/21 (80%)
Query: 80 KCPHCNKKCHQKCNLKSHIAL 100
KCPHC+KK +Q NLK+H+ +
Sbjct: 4 KCPHCDKKFNQVGNLKAHLKI 24
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 152 QFKCPYCDKRCKLKGNLMSHIAL 174
+ KCP+CDK+ GNL +H+ +
Sbjct: 2 EHKCPHCDKKFNQVGNLKAHLKI 24
>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 = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 20/45 (44%), Gaps = 1/45 (2%)
Query: 64 TLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAP 108
L H R C RP FKC +C+ Q NL H+ H + P
Sbjct: 24 ALRIHERIHCTDRP-FKCNYCSFDTKQPSNLSKHMKKFHGDMSGP 67
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 42/92 (45%), Gaps = 16/92 (17%)
Query: 53 PKCSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPR 112
P C+K Y + L AHLR G++P +KC + C+ + + D+L R
Sbjct: 21 PGCTKVYTKSSHLKAHLRTHTGEKP-YKCT------WEGCDWR---FARSDELT-----R 65
Query: 113 SYRRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
YR+++ F C C+ + +L H+K
Sbjct: 66 HYRKHTGAK-PFQCGVCNRSFSRSDHLALHMK 96
Score = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 127 PKCSNRYVYKHNLKQHLKFECGVEPQFKCPY--CDKRCKLKGNLMSHIALKHT 177
P C+ Y +LK HL+ G +P +KC + CD R L H KHT
Sbjct: 21 PGCTKVYTKSSHLKAHLRTHTGEKP-YKCTWEGCDWRFARSDELTRHYR-KHT 71
>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 = 2.1, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 16/90 (17%)
Query: 55 CSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSY 114
C KTY + L AHLR G++P HC+ C K + D+L R Y
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKP----YHCDW---DGCGWK---FARSDEL-----TRHY 58
Query: 115 RRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
R+++ + F C KC + +L H+K
Sbjct: 59 RKHTG-HRPFQCQKCDRAFSRSDHLALHMK 87
>pdb|7ZNF|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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 153 FKCPYCDKRCKLKGNLMSHIALKHT 177
++C YC+KR NL +HI KH+
Sbjct: 3 YQCQYCEKRFADSSNLKTHIKTKHS 27
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C KC K Y ++ L+ H + G+RP
Sbjct: 10 EKPYKCEKCGKGYNSKFNLDMHQKVHTGERP 40
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 28.1 bits (61), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 40/90 (44%), Gaps = 16/90 (17%)
Query: 55 CSKTYLRQYTLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSY 114
C KTY + L AHLR G++P HC+ C K + D+L R Y
Sbjct: 13 CGKTYTKSSHLKAHLRTHTGEKP----YHCDW---DGCGWK---FARSDEL-----TRHY 57
Query: 115 RRNSQLNGSFICPKCSNRYVYKHNLKQHLK 144
R+++ + F C KC + +L H+K
Sbjct: 58 RKHTG-HRPFQCQKCDRAFSRSDHLALHMK 86
>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 = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 49 VFACPKCSKTYLRQYTLNAHLRYECGKRP 77
+F C +C KT+ + +L H R G++P
Sbjct: 12 LFKCNECKKTFTQSSSLTVHQRIHTGEKP 40
>pdb|2ELY|A Chain A, Solution Structure Of The Third Zf-C2h2 Domain From
Human Zinc Finger Protein 224
Length = 46
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E F C +C K + R+ LN H + G++P
Sbjct: 10 EKPFKCVECGKGFSRRSALNVHHKLHTGEKP 40
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 2/53 (3%)
Query: 53 PKCSKTYLRQYTLNAHLRYECGKRPKFKCPH--CNKKCHQKCNLKSHIALKHD 103
P C + + + LN H +Y+ + F CP C K + K +LK H+ L D
Sbjct: 13 PGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSD 65
>pdb|2QM3|A Chain A, Crystal Structure Of A Predicted Methyltransferase From
Pyrococcus Furiosus
Length = 373
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 10/19 (52%)
Query: 70 RYECGKRPKFKCPHCNKKC 88
Y GKR F CPHC K
Sbjct: 103 EYGIGKRYDFTCPHCQGKT 121
>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 = 27.7 bits (60), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E F C +C K + + L +HLR G++P
Sbjct: 10 EKPFKCKECGKAFRQNIHLASHLRIHTGEKP 40
>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 = 4.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C +C K+++++ LN H R G++P
Sbjct: 10 EKPYICNECGKSFIQKSHLNRHRRIHTGEKP 40
>pdb|2YTD|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
426- 458) Of Human Zinc Finger Protein 473
Length = 46
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C +C K + R LN H R G RP
Sbjct: 10 EKPYKCSECGKAFHRHTHLNEHRRIHTGYRP 40
>pdb|1XRZ|A Chain A, Nmr Structure Of A Zinc Finger With Cyclohexanylalanine
Substituted For The Central Aromatic Residue
Length = 30
Score = 27.3 bits (59), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 153 FKCPYCDKRCKLKGNLMSHIALKHT 177
++C YC+ R NL +HI KH+
Sbjct: 3 YQCQYCEXRSADSSNLKTHIKTKHS 27
>pdb|2YTP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
687- 719) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.9 bits (58), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C +C K + R+ TL H R G++P
Sbjct: 10 ERHYECSECGKAFARKSTLIMHQRIHTGEKP 40
>pdb|2EMI|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
547- 579) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 19/31 (61%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C +C K ++++ TL+ H R G++P
Sbjct: 10 ERHYECSECGKAFIQKSTLSMHQRIHRGEKP 40
>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 = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E F C +C K+Y ++ L H R G++P
Sbjct: 10 EKPFKCGECGKSYNQRVHLTQHQRVHTGEKP 40
>pdb|2KFQ|A Chain A, Nmr Structure Of Fp1
Length = 32
Score = 26.9 bits (58), Expect = 6.7, Method: Composition-based stats.
Identities = 9/21 (42%), Positives = 14/21 (66%)
Query: 50 FACPKCSKTYLRQYTLNAHLR 70
FACP C K ++R L+ H++
Sbjct: 3 FACPACPKRFMRSDALSKHIK 23
>pdb|2CTD|A Chain A, Solution Structure Of Two Zf-C2h2 Domains From Human Zinc
Finger Protein 512
Length = 96
Score = 26.6 bits (57), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 27/65 (41%), Gaps = 5/65 (7%)
Query: 50 FACPKCSKTYLRQY-TLNAHLRYECGKRPKFKCPHCNKKCHQKCNLKSHIALKHDQLLAP 108
+CP C + L H+ E K+ F C HC K+ +K H+ H+ L P
Sbjct: 35 VSCPTCQAVGRKTIEGLKKHM--ENCKQEMFTCHHCGKQLRSLAGMKYHVMANHNSL--P 90
Query: 109 LAPRS 113
P S
Sbjct: 91 SGPSS 95
>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 = 26.6 bits (57), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 153 FKCPYCDKRCKLKGNLMSHIALKHT 177
++C YC+ R NL +HI KH+
Sbjct: 3 YQCQYCEYRSADSSNLKTHIKTKHS 27
>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 = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 16/31 (51%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E+ F C +C K + + L H + G+RP
Sbjct: 10 ENPFICSECGKVFTHKTNLIIHQKIHTGERP 40
>pdb|2EN1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
563- 595) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.6 bits (57), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E F C +C K + + L++H R G++P
Sbjct: 10 EKPFKCEECGKRFTQNSQLHSHQRVHTGEKP 40
>pdb|2ENA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
311- 343) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.2 bits (56), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 19/39 (48%)
Query: 39 SSEDKPAGEDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
SS E F C C K++ ++ LN+H G++P
Sbjct: 2 SSGSSGTAEKPFRCDTCDKSFRQRSALNSHRMIHTGEKP 40
>pdb|2EPZ|A Chain A, Solution Structure Of The 4th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E F C C K + LN H R G++P
Sbjct: 10 EKPFDCIDCGKAFSDHIGLNQHRRIHTGEKP 40
>pdb|2EP1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
435- 467) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.2 bits (56), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 9/31 (29%), Positives = 17/31 (54%)
Query: 47 EDVFACPKCSKTYLRQYTLNAHLRYECGKRP 77
E + C C K+++++ L+ H R G+ P
Sbjct: 10 EKPYECSDCGKSFIKKSQLHVHQRIHTGENP 40
>pdb|1X6F|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 462
Length = 88
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 79 FKCPHCNKKCHQKCNLKSHIALKHDQLLAPLAPRSYRR 116
++C HC+ K L SH+ + H++ A R RR
Sbjct: 26 YQCKHCDSKLQSTAELTSHLNI-HNEEFQKRAKRQERR 62
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
0.321 0.134 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,968,370
Number of Sequences: 62578
Number of extensions: 187078
Number of successful extensions: 736
Number of sequences better than 100.0: 119
Number of HSP's better than 100.0 without gapping: 95
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 447
Number of HSP's gapped (non-prelim): 265
length of query: 177
length of database: 14,973,337
effective HSP length: 92
effective length of query: 85
effective length of database: 9,216,161
effective search space: 783373685
effective search space used: 783373685
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 48 (23.1 bits)