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= psy4421
(167 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 = 55.5 bits (132), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 49/122 (40%), Gaps = 16/122 (13%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSC 103
Y C C S++L +H HTGEKP+ C C S D KDL H
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKPYK--------CPECGKSFS-DKKDLTRH---- 68
Query: 104 SHMTRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHM 163
R + C C + N++ H R H +KPY C C Q HL++H
Sbjct: 69 ---QRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQ 125
Query: 164 KS 165
++
Sbjct: 126 RT 127
Score = 43.9 bits (102), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 35/124 (28%), Positives = 47/124 (37%), Gaps = 20/124 (16%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSC 103
Y C C + NL+ H HTGEKP++ C C S + L H
Sbjct: 78 YKCPECGKSFSQRANLRAHQRTHTGEKPYA--------CPECGKSFS-QLAHLRAH---- 124
Query: 104 SHMTRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQ----NVHL 159
R + C C + N+ TH R H +KPYKC C + NVH
Sbjct: 125 ---QRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDALNVHQ 181
Query: 160 KSHM 163
++H
Sbjct: 182 RTHT 185
>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 = 48.9 bits (115), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 47/120 (39%), Gaps = 44/120 (36%)
Query: 46 CYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSH 105
C C ES+ LK+H L HTGEKPF +E C S D
Sbjct: 37 CAECGKAFVESSKLKRHQLVHTGEKPFQCTFEG------CGKRFSLDF------------ 78
Query: 106 MTRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHM 163
N++TH+R+H D+PY C CN + Q+ +LKSH+
Sbjct: 79 ------------------------NLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 26.9 bits (58), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 117 VCYACEYNTYMSGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHMK 164
VC C S +K H +H +KP++C+ C + +L++H++
Sbjct: 36 VCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVR 85
>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 = 46.2 bits (108), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 30/50 (60%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+ C C+Y S ++ HLR+H D++P+KC +C Y R + L H++S
Sbjct: 37 YKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASRNSSQLTVHLRS 86
Score = 34.7 bits (78), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 20/34 (58%)
Query: 131 IKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
+KTH+R H KPYKC C+Y + L H++
Sbjct: 24 LKTHMRCHTGVKPYKCKTCDYAAADSSSLNKHLR 57
Score = 30.8 bits (68), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 39/96 (40%), Gaps = 16/96 (16%)
Query: 46 CYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSH 105
C C + LK H+ HTG KP+ C C+ Y ++D L +H + S
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYK--------CKTCD-YAAADSSSLNKHLRIHSD 61
Query: 106 MTRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDD 141
RP F C C Y + S + HLR H D
Sbjct: 62 -ERP------FKCQICPYASRNSSQLTVHLRSHTGD 90
Score = 30.0 bits (66), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 23/42 (54%), Gaps = 6/42 (14%)
Query: 31 CISMVRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPF 72
C + V+P Y C C Y +S++L KH+ H+ E+PF
Sbjct: 30 CHTGVKP------YKCKTCDYAAADSSSLNKHLRIHSDERPF 65
>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 = 45.1 bits (105), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 36/107 (33%), Positives = 50/107 (46%), Gaps = 17/107 (15%)
Query: 59 LKKHILKHTGEKPFSYMYENQQYCIHCNS-YISSDIKDLIEH-CKSCSHMTRPDAFHFKF 116
LK H KHTGEKPF C C Y + +L+EH ++C M R + F
Sbjct: 23 LKVHNRKHTGEKPFE--------CPKCGKCYFRKE--NLLEHEARNC--MNRSEQV---F 67
Query: 117 VCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHM 163
C C+ ++ H+ H + PYKCS C+ + Q L+SHM
Sbjct: 68 TCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHM 114
>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 = 40.8 bits (94), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%)
Query: 115 KFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
K++C C +K H+R H D +PY C+ CN+ + +L HMKS
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKS 51
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 30/63 (47%), Gaps = 9/63 (14%)
Query: 43 KYGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKS 102
KY C C + + LKKHI HT +P+ +C +CN + +L +H KS
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPY--------HCTYCNFSFKTK-GNLTKHMKS 51
Query: 103 CSH 105
+H
Sbjct: 52 KAH 54
>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 = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 42/122 (34%), Gaps = 44/122 (36%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSC 103
Y C C +S+NL+KH HTGEKP+ C C S
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYK--------CPECGKSFS------------- 43
Query: 104 SHMTRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHM 163
S +++ H R H +KPYKC C ++ HL H
Sbjct: 44 -----------------------QSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQ 80
Query: 164 KS 165
++
Sbjct: 81 RT 82
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%)
Query: 109 PDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSH 162
P +F+C C + S N+ H R H D++PY C +C+ R+ HL+ H
Sbjct: 11 PSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERPYTCDICHKAFRRQDHLRDH 64
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 131 IKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKSNH 167
+ HLR H +KPYKC C Y Q L+ H++ +H
Sbjct: 20 LNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYHLERHH 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 = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 42/116 (36%), Gaps = 42/116 (36%)
Query: 49 CSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTR 108
C+ +S++LK H+ HTGEKP+ +E
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWE------------------------------- 51
Query: 109 PDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
C++ S + H R H KP++C +CN ++ HL HMK
Sbjct: 52 -----------GCDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMK 96
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
+ C C+ + GN+ +H +H +KPY+C++C + + +LK+H +
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
Score = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 14/29 (48%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPF 72
Y C RC NL H HTGEKP+
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPY 46
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 25/37 (67%)
Query: 131 IKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKSNH 167
++ H R+H D+P+KC+ C+++ +Q +L HMK H
Sbjct: 25 LRIHERIHCTDRPFKCNYCSFDTKQPSNLSKHMKKFH 61
>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 = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/116 (23%), Positives = 40/116 (34%), Gaps = 44/116 (37%)
Query: 49 CSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTR 108
C +S+NL +HI HTG+KPF
Sbjct: 12 CDRRFSDSSNLTRHIRIHTGQKPFQ----------------------------------- 36
Query: 109 PDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 37 ---------CRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 27/46 (58%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S N+ H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 28/46 (60%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ SG++ H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSQSGSLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>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 = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 34 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 82
Score = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S + H+R+H KP++C +C ++ HL +H+++
Sbjct: 10 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 55
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 25 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 63
>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 = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 33.5 bits (75), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S + H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSRSAELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>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 = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 33.1 bits (74), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S + H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>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 = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 34.3 bits (77), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 27/46 (58%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S ++ H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
F C C N S ++ TH+R H +KP+ C +C + ++ K H K
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S + H+R+H KP++C +C ++ HL +H+++
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 56
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C S++L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA 64
>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 = 35.8 bits (81), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ N+ TH+R+H KP++C +C Q L +H+++
Sbjct: 11 SCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRT 56
Score = 31.6 bits (70), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 18/37 (48%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYE 152
F C C N ++ H+R H +KP+ C +C +
Sbjct: 35 FQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRK 71
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C + +L HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFA 64
>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 = 35.8 bits (81), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 45/100 (45%), Gaps = 14/100 (14%)
Query: 49 CSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTR 108
C+ ++ ++L+ H KHTGEKP+ +++ C S D ++ + +
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKD------CERRFSRS--DQLKRHQRRHTGVK 65
Query: 109 PDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSL 148
P F C C+ S ++KTH R H +KP+ C
Sbjct: 66 P------FQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRW 99
Score = 33.5 bits (75), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 121 CEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
CE S +K H R H KP++C C + ++ HLK+H ++
Sbjct: 44 CERRFSRSDQLKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRT 88
Score = 29.6 bits (65), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+ C C S++LK H HTGEKPFS
Sbjct: 67 FQCKTCQRKFSRSDHLKTHTRTHTGEKPFS 96
>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 = 0.025, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKSNH 167
F C C N S ++ TH+R H +KP+ C +C + ++ K H H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDIQH 55
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+ C C S++L HI HTGEKPF+
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKPFA 33
>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 = 34.7 bits (78), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 25/46 (54%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ N+ TH+R+H KP++C +C Q+ L H+++
Sbjct: 11 SCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRT 56
Score = 29.6 bits (65), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 17/37 (45%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYE 152
F C C N + H+R H +KP+ C +C +
Sbjct: 35 FQCRICMRNFSQHTGLNQHIRTHTGEKPFACDICGRK 71
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 20/39 (51%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPFS 73
+R + + + C C + L +HI HTGEKPF+
Sbjct: 26 IRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGEKPFA 64
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCN 150
FVC C ++K H R H ++KPY C LCN
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLCN 37
>pdb|2ELQ|A Chain A, Solution Structure Of The 14th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 33.5 bits (75), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 16/24 (66%)
Query: 140 DDKPYKCSLCNYECRQNVHLKSHM 163
KP+KCSLC Y R +LK+HM
Sbjct: 6 SGKPFKCSLCEYATRSKSNLKAHM 29
Score = 26.2 bits (56), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDK 142
F C CEY T N+K H+ H +K
Sbjct: 10 FKCSLCEYATRSKSNLKAHMNRHSTEK 36
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 33.5 bits (75), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSH 162
F C C + S + THL +H D +PY C C Q +K H
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKH 48
Score = 30.4 bits (67), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%), Gaps = 6/58 (10%)
Query: 107 TRPDAFHFKFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
TRP + C C + ++K H +H +KP+KC +C Q+ +L +H +
Sbjct: 27 TRP------YPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSR 78
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKP 71
Y C C ++ +++KKH HTGEKP
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFIHTGEKP 57
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 32.7 bits (73), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 23/50 (46%)
Query: 115 KFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
++ C C + S ++ H R H +KPYKC C Q HL H +
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHR 67
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 41 KYKYGCYRCSYFTYESNNLKKHILKHTGEKPF 72
+ +Y C C S++L KH HTGEKP+
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKHRRTHTGEKPY 47
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 32.7 bits (73), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 17/91 (18%)
Query: 73 SYMYENQQYCIH--CNSYISSDIKDLIEHCKSCSHMTRPDAFHFKFVCY----------- 119
S +++Q+ +H + +I + K+ + H CS RP + V +
Sbjct: 10 SQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKPHK 69
Query: 120 ----ACEYNTYMSGNIKTHLRLHLDDKPYKC 146
C + N+KTHLR H +KPY C
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRSHTGEKPYMC 100
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 47/114 (41%), Gaps = 25/114 (21%)
Query: 62 HILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTRPDAFHFKFVCYAC 121
H+ +HTGEKP +E + SY S +++L H +S H Y C
Sbjct: 58 HMRRHTGEKPHKCTFEGCR-----KSY--SRLENLKTHLRS----------HTGEKPYMC 100
Query: 122 EYN------TYMSGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHMKSNH 167
E+ + S K R H ++KPY C L C L+ H+K+ H
Sbjct: 101 EHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 16/28 (57%), Positives = 18/28 (64%), Gaps = 3/28 (10%)
Query: 45 GCYRCSYFTYESNNLKKHILKHTGEKPF 72
GC R SY E NLK H+ HTGEKP+
Sbjct: 74 GC-RKSYSRLE--NLKTHLRSHTGEKPY 98
>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 = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/46 (26%), Positives = 26/46 (56%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKS 165
+C+ S + H+R+H KP++C +C ++ HL +H+++
Sbjct: 26 SCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRT 71
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 17/38 (44%)
Query: 35 VRPDSFKYKYGCYRCSYFTYESNNLKKHILKHTGEKPF 72
V P Y C S+ L +HI HTG+KPF
Sbjct: 13 VVPKMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPF 50
>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 = 31.6 bits (70), Expect = 0.21, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMK 164
+KP+KC C RQN+HL SH++
Sbjct: 10 EKPFKCKECGKAFRQNIHLASHLR 33
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 134 HLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
H+ +HL +PY C +C + + HL HMK
Sbjct: 28 HMSMHLGLRPYGCGVCGKKFKMKHHLVGHMK 58
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLC 149
+ C C M ++ H+++H KPY+C++C
Sbjct: 38 YGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNIC 71
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 41/110 (37%), Gaps = 42/110 (38%)
Query: 55 ESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTRPDAFHF 114
+S++LK H+ HTGEKP+ HC+ D +
Sbjct: 20 KSSHLKAHLRTHTGEKPY-----------HCDW----------------------DGCGW 46
Query: 115 KFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
KF S + H R H +P++C C+ ++ HL HMK
Sbjct: 47 KFA---------RSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMK 87
Score = 27.3 bits (59), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHMK 164
C S ++K HLR H +KPY C C ++ ++ L H +
Sbjct: 13 GCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYR 59
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 31.2 bits (69), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 27/110 (24%), Positives = 41/110 (37%), Gaps = 42/110 (38%)
Query: 55 ESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEHCKSCSHMTRPDAFHF 114
+S++LK H+ HTGEKP+ HC+ D +
Sbjct: 19 KSSHLKAHLRTHTGEKPY-----------HCDW----------------------DGCGW 45
Query: 115 KFVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
KF S + H R H +P++C C+ ++ HL HMK
Sbjct: 46 KFA---------RSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALHMK 86
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHMK 164
C S ++K HLR H +KPY C C ++ ++ L H +
Sbjct: 12 GCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYR 58
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 30.8 bits (68), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 22/49 (44%)
Query: 116 FVCYACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMK 164
+ C C S + H R+H +KPYKC C QN L +H +
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 24/56 (42%), Gaps = 9/56 (16%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKPFSYMYENQQYCIHCNSYISSDIKDLIEH 99
YGC C S+ L +H HTGEKP+ C+ C S + LI H
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKPYK--------CLECGKAFSQN-SGLINH 61
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 30.4 bits (67), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 19/30 (63%)
Query: 49 CSYFTYESNNLKKHILKHTGEKPFSYMYEN 78
C ++S++LK H HTGEKPFS ++
Sbjct: 25 CGKTYFKSSHLKAHTRTHTGEKPFSCSWKG 54
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 17/35 (48%)
Query: 120 ACEYNTYMSGNIKTHLRLHLDDKPYKCSLCNYECR 154
C + S ++K H R H +KP+ CS E R
Sbjct: 24 GCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERR 58
>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 = 0.90, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEK 70
Y C +CSY + NL H+ KHTGEK
Sbjct: 10 YKCPQCSYASAIKANLNVHLRKHTGEK 36
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 15/30 (50%)
Query: 49 CSYFTYESNNLKKHILKHTGEKPFSYMYEN 78
C S NLK H HTGEKPF +E
Sbjct: 98 CGKIFARSENLKIHKRTHTGEKPFKCEFEG 127
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 19/38 (50%), Gaps = 2/38 (5%)
Query: 128 SGNIKTHLRLHLDDKPYKCSL--CNYECRQNVHLKSHM 163
S N+K H R H +KP+KC C+ + K HM
Sbjct: 105 SENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKHM 142
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 28.9 bits (63), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 19/39 (48%)
Query: 129 GNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKSNH 167
G+ + R H +KPY CS C+ RQ L H K H
Sbjct: 1 GSSGSSGRTHTGEKPYACSHCDKTFRQKQLLDMHFKRYH 39
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 14/47 (29%), Positives = 26/47 (55%), Gaps = 2/47 (4%)
Query: 37 PDSFKYK-YGCYRCSYFTYESNNLKKHI-LKHTGEKPFSYMYENQQY 81
PD +KY Y C+ FT+ N L KH+ +++ + F+ +E + +
Sbjct: 666 PDMYKYDAYLCFSSKDFTWVQNALLKHLDTQYSDQNRFNLCFEERDF 712
>pdb|2EQ0|A Chain A, Solution Structure Of The 8th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 44 YGCYRCSYFTYESNNLKKHILKHTGEKP 71
Y C+ C +++L +H L HTGEKP
Sbjct: 13 YKCHECGKVFRRNSHLARHQLIHTGEKP 40
>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 = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMKS 165
+KPY+C +C+ Q HL H K+
Sbjct: 10 EKPYECKVCSKAFTQKAHLAQHQKT 34
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 129 GNIKTHLRLHLDDKPYKCSLCNYECRQNVHLKSHMKSNH 167
G+ + R H +KPY+C +C+ Q+ +K H+ H
Sbjct: 1 GSSGSSGRTHSGEKPYECYICHARFTQSGTMKMHILQKH 39
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 9/72 (12%)
Query: 46 CYRCSYFTYESNNLKKHILKHTGEKPFS------YMYENQQYCIHCNSYISSDIKDLIEH 99
C C + +L +H L H+GEKP+S + H S+ S K I
Sbjct: 10 CEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYI-- 67
Query: 100 CKSCS-HMTRPD 110
C+SC +RPD
Sbjct: 68 CQSCGKGFSRPD 79
>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 = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMK 164
+KPYKC+ C QN HL +H +
Sbjct: 10 EKPYKCNECGKVFTQNSHLTNHWR 33
>pdb|2EOE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
508- 540) Of Human Zinc Finger Protein 347
Length = 46
Score = 26.6 bits (57), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMK 164
+KPYKC+ C QN HL +H +
Sbjct: 10 EKPYKCNECGKVFTQNSHLANHQR 33
>pdb|2M0F|A Chain A, Solution Structure Of Miz-1 Zinc Finger 7
Length = 29
Score = 26.6 bits (57), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 118 CYACEYNTYMSGNIKTHLRLHLDDK 142
C C SGN+K HLR+H +K
Sbjct: 5 CRECGKQFTTSGNLKRHLRIHSGEK 29
>pdb|3ZNF|A Chain A, High-Resolution Three-Dimensional Structure Of A Single
Zinc Finger From A Human Enhancer Binding Protein In
Solution
pdb|4ZNF|A Chain A, High-Resolution Three-Dimensional Structure Of A Single
Zinc Finger From A Human Enhancer Binding Protein In
Solution
Length = 30
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 142 KPYKCSLCNYECRQNVHLKSHMKS 165
+PY CS CN+ + +L HMKS
Sbjct: 1 RPYHCSYCNFSFKTKGNLTKHMKS 24
>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 = 26.2 bits (56), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMK 164
+KP++C C QN HL SH +
Sbjct: 10 EKPFQCEECGKRFTQNSHLHSHQR 33
>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 = 26.2 bits (56), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 141 DKPYKCSLCNYECRQNVHLKSHMK 164
+KP+KC C Q VHL H +
Sbjct: 10 EKPFKCGECGKSYNQRVHLTQHQR 33
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 26.2 bits (56), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 59 LKKHILKHTGEKPF 72
L+ H+ KHTGEKPF
Sbjct: 21 LQAHLSKHTGEKPF 34
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
0.324 0.134 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,231,225
Number of Sequences: 62578
Number of extensions: 204847
Number of successful extensions: 1013
Number of sequences better than 100.0: 100
Number of HSP's better than 100.0 without gapping: 89
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 728
Number of HSP's gapped (non-prelim): 272
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)