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= 039549
(324 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 = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 59/143 (41%), Gaps = 31/143 (21%)
Query: 152 AQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCA 211
A + G +AC C K+F+R +++ H H G +P Y C
Sbjct: 13 AALEPGEKPYACPECGKSFSRSDHLAEHQRTH-----------TGEKP--------YKCP 53
Query: 212 QGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK-NCGKL 270
+ K D + L H + G KP+ C +CGK+F+ + + R H++ + G+
Sbjct: 54 EC---------GKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEK 104
Query: 271 WYC--TCGSDFKHKRSLKDHIRS 291
Y CG F L+ H R+
Sbjct: 105 PYACPECGKSFSQLAHLRAHQRT 127
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/145 (26%), Positives = 60/145 (41%), Gaps = 15/145 (10%)
Query: 156 VGPMQFACSICSKTFNRYNNMQMHMWGH-GSEYRKGPDSLKGTQPAAMLRLPCYCCAQGC 214
G + C C K+F+ ++ H H G + K P+ K A LR A
Sbjct: 45 TGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLR------AHQR 98
Query: 215 KNNINHPRA-----KPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK--NC 267
+ P A K L+ H + G KP+ C +CGK+F+ + + TH++
Sbjct: 99 THTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTG 158
Query: 268 GKLWYC-TCGSDFKHKRSLKDHIRS 291
K + C CG F + +L H R+
Sbjct: 159 EKPYKCPECGKSFSRRDALNVHQRT 183
>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 = 35.0 bits (79), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 32/72 (44%), Gaps = 3/72 (4%)
Query: 223 AKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK--NCGKLWYC-TCGSDF 279
K LQ H + G KP+ C +CGK+F+ D + H++ K + C CG F
Sbjct: 11 GKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSF 70
Query: 280 KHKRSLKDHIRS 291
L H R+
Sbjct: 71 SRSDHLSRHQRT 82
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 28/105 (26%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINH 220
+ C C K+F++ +N+Q H H G +P Y C +
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHT-----------GEKP--------YKCPEC------- 38
Query: 221 PRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
K LQ H + G KP+ C +CGK+F+ H++
Sbjct: 39 --GKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQR 81
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHEK--NCGKLWYC-TCGSDFKHKRSLKDHIRS 291
KP+ C +CGK+F+ + + H++ K + C CG F L+ H R+
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRT 54
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 34.7 bits (78), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 223 AKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDW----RTHEKNCGKLWYC-TCGS 277
K +D L H G KP+ C CG F K R+H+ + GK + C +CG
Sbjct: 14 GKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGK 73
Query: 278 DFKHKRSLKDHIRSFGKG 295
F L HI+ G
Sbjct: 74 GFSRPDHLNGHIKQVHSG 91
>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 = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 6/66 (9%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHE-KNC----GKLWYCT-CGSDFKHKRSL 285
L+ H ++ G KPF C KCGK + K + HE +NC +++ C+ C F+ + L
Sbjct: 23 LKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMEL 82
Query: 286 KDHIRS 291
+ H+ S
Sbjct: 83 RLHMVS 88
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSE 186
F CS+C +TF R +++HM H E
Sbjct: 67 FTCSVCQETFRRRMELRLHMVSHTGE 92
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 18/25 (72%)
Query: 241 GAKPFMCRKCGKTFAVKGDWRTHEK 265
G KP+ C++CGK+F+ +G HE+
Sbjct: 7 GEKPYQCKECGKSFSQRGSLAVHER 31
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 224 KPLKDFRTLQTHFKRKHGAK----PFMCRKCGKTFAVKGDWRTHEKNC 267
K + + L HFKR H F+C KCGKTF + H NC
Sbjct: 23 KTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHADNC 70
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 5/39 (12%)
Query: 158 PMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKG 196
P F CS C KTF R N M H ++ GPD ++G
Sbjct: 45 PAAFVCSKCGKTFTRRNTMARH-----ADNCAGPDGVEG 78
>pdb|2EPC|A Chain A, Solution Structure Of Zinc Finger Domain 7 In Zinc Finger
Protein 32
Length = 42
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 17/24 (70%)
Query: 244 PFMCRKCGKTFAVKGDWRTHEKNC 267
P++C +CGK+F +G H+++C
Sbjct: 11 PYLCGQCGKSFTQRGSLAVHQRSC 34
>pdb|2EMP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
536- 568) Of Human Zinc Finger Protein 347
Length = 46
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 242 AKPFMCRKCGKTFAVKGDWRTHE 264
KP+MC +CGK F+V TH+
Sbjct: 10 VKPYMCNECGKAFSVYSSLTTHQ 32
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHEK 265
KPF C CGK+F KG+ TH++
Sbjct: 11 KPFECTHCGKSFRAKGNLVTHQR 33
>pdb|2YTF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
607- 639) Of Human Zinc Finger Protein 268
Length = 46
Score = 31.2 bits (69), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
F CS C K FN +N+ +H H E GP S
Sbjct: 13 FECSECQKAFNTKSNLIVHQRTHTGEKPSGPSS 45
>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 = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 31/74 (41%), Gaps = 7/74 (9%)
Query: 224 KPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCG--KLWYC-TCGSDF- 279
+ D L H + G KPF CR C + F+ TH + K + C CG F
Sbjct: 14 RRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFA 73
Query: 280 ---KHKRSLKDHIR 290
+ KR K H+R
Sbjct: 74 RSDERKRHTKIHLR 87
>pdb|2EQW|A Chain A, Solution Structure Of The 6th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 484
Length = 42
Score = 31.2 bits (69), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 241 GAKPFMCRKCGKTFAVKGDWRTHEK 265
G KP++C +CGK F K + THE+
Sbjct: 7 GEKPYVCTECGKAFIRKSHFITHER 31
>pdb|1AAY|A Chain A, Zif268 Zinc Finger-Dna Complex
pdb|1A1L|A Chain A, Zif268 Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>pdb|2EN0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
385- 413) Of Human Zinc Finger Protein 268
Length = 42
Score = 30.8 bits (68), Expect = 0.98, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 241 GAKPFMCRKCGKTFAVKGDWRTHEK 265
G KP++C +CGK F +K HE+
Sbjct: 7 GQKPYVCNECGKAFGLKSQLIIHER 31
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 7/66 (10%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCG--KLWYC-TCGSDF----KHKRS 284
L H + G KPF CR C + F+ TH + K + C CG F + KR
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
Query: 285 LKDHIR 290
K H+R
Sbjct: 82 TKIHLR 87
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 30.8 bits (68), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 49 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 82
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 7/67 (10%)
Query: 231 TLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCG--KLWYC-TCGSDF----KHKR 283
+L H + G KPF CR C + F+ TH + K + C CG F + KR
Sbjct: 21 SLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKR 80
Query: 284 SLKDHIR 290
K H+R
Sbjct: 81 HTKIHLR 87
>pdb|2EP2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
603- 635) Of Human Zinc Finger Protein 484
Length = 46
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ CSIC K+F + + + +H H E GP S
Sbjct: 13 YECSICGKSFTKKSQLHVHQQIHTGEKPSGPSS 45
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTH 263
L TH + G KPF C CG+ FA + + H
Sbjct: 19 LTTHIRTHTGEKPFACDICGRKFARSDERKRH 50
>pdb|2YTO|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
659- 691) Of Human Zinc Finger Protein 484
Length = 46
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ CS C K F R + + +H H E GP S
Sbjct: 13 YKCSDCGKAFTRKSGLHIHQQSHTGERHSGPSS 45
>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
612- 644) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHEK 265
KPF C +CGK+F++ TH++
Sbjct: 11 KPFECAECGKSFSISSQLATHQR 33
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 39/105 (37%), Gaps = 28/105 (26%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKNNINH 220
F C IC K+F R + + H+ H T+P PC C +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSD-----------TRP-----YPCQYCGK------RF 39
Query: 221 PRAKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
+ +K + T G KP C+ CGK F+ + TH +
Sbjct: 40 HQKSDMKKHTFIHT------GEKPHKCQVCGKAFSQSSNLITHSR 78
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHE 264
KP+ C +CGK F+V+ TH+
Sbjct: 11 KPYECNQCGKAFSVRSSLTTHQ 32
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHE--KNCGKLWYCT-CGSDFKHKRSLKDHIR 290
KP+ C +C +F KG+ +H+ K + C CG+ F +LK H R
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
>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 = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 160 QFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
F C+ C K F R + + MH H E GP S
Sbjct: 12 HFECTECGKAFTRKSTLSMHQKIHTGEKPSGPSS 45
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ C C K +NR N+ MH H E GP S
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVHMGEKTSGPSS 45
>pdb|2YTJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
771- 803) Of Human Zinc Finger Protein 484
Length = 46
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 16/23 (69%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHEK 265
KP++C +CGK F ++ + H+K
Sbjct: 11 KPYICAECGKAFTIRSNLIKHQK 33
>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 = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTH 263
L TH + G KPF CR C + F+ + H
Sbjct: 22 LDTHIRIHTGQKPFQCRICMRNFSQQASLNAH 53
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 16/35 (45%)
Query: 231 TLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEK 265
+L H + G KPF C CG+ FA H K
Sbjct: 49 SLNAHIRTHTGEKPFACDICGRKFATLHTRTRHTK 83
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 25/61 (40%), Gaps = 10/61 (16%)
Query: 206 PCYCCAQGCKNNINHPRAKPLKDFRTLQTHFKRKHGAKPFMCRK--CGKTFAVKGDWRTH 263
P C +GC+ K L+TH + G KP+MC C K F+ D H
Sbjct: 67 PHKCTFEGCR--------KSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKH 118
Query: 264 E 264
+
Sbjct: 119 Q 119
>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 = 4.2, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKN 266
L+ H +R G KPF C+ C + F+ +TH +
Sbjct: 54 LKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRT 88
>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 = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 8/78 (10%)
Query: 231 TLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRT-HE-KNCGKLWY--CTCGSDFKHKRSLK 286
+L+ HF K + CR C K F + ++RT HE + G+ Y CG F + + +
Sbjct: 37 SLRRHFNIHSWEKKYPCRYCEKVFPL-AEYRTKHEIHHTGERRYQCLACGKSFINYQFMS 95
Query: 287 DHIRSFGKGHSPHPSLDG 304
HI+S HS PS D
Sbjct: 96 SHIKSV---HSQDPSGDS 110
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ C +C K F++ +++Q H H E GP S
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRVHTGEKPSGPSS 45
>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 = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ C +CSK F + ++ H H E GP S
Sbjct: 13 YECKVCSKAFTQKAHLAQHQKTHTGEKPSGPSS 45
>pdb|2EMG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
463- 495) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
F CS C K F N+ +H H E GP S
Sbjct: 13 FICSECGKVFTHKTNLIIHQKIHTGERPSGPSS 45
>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 = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 4/48 (8%)
Query: 143 DSRFW----IPTPAQILVGPMQFACSICSKTFNRYNNMQMHMWGHGSE 186
D RF + T +I G F C IC + F+++ + H+ H E
Sbjct: 13 DRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIRTHTGE 60
>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 = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 32/73 (43%), Gaps = 6/73 (8%)
Query: 223 AKPLKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHE--KNCGKLWYCT---CGS 277
K +D ++ H HG + +C +CGK F + H+ K + CT CG
Sbjct: 14 TKMFRDNSAMRKHL-HTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGK 72
Query: 278 DFKHKRSLKDHIR 290
F +L+ H+R
Sbjct: 73 RFSLDFNLRTHVR 85
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 40/109 (36%), Gaps = 28/109 (25%)
Query: 157 GPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDSLKGTQPAAMLRLPCYCCAQGCKN 216
GP C+ C K F + ++ H H E P C +GC
Sbjct: 31 GPRVHVCAECGKAFVESSKLKRHQLVHTGEK------------------PFQCTFEGCGK 72
Query: 217 NINHPRAKPLKDFRTLQTHFKRKHGAKPFMC--RKCGKTFAVKGDWRTH 263
+ DF L+TH + G +P++C C K FA + ++H
Sbjct: 73 RFS-------LDF-NLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 18/28 (64%)
Query: 156 VGPMQFACSICSKTFNRYNNMQMHMWGH 183
G F C +C+++F+R +++ +HM H
Sbjct: 71 TGAKPFQCGVCNRSFSRSDHLALHMKRH 98
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFA 255
L H+++ GAKPF C C ++F+
Sbjct: 63 LTRHYRKHTGAKPFQCGVCNRSFS 86
>pdb|2EMX|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
273- 303) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 17/37 (45%)
Query: 157 GPMQFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
G F CS C K F+ + + +H H E GP S
Sbjct: 7 GEKPFGCSCCEKAFSSKSYLLVHQQTHAEEKPSGPSS 43
>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 = 6.6, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
F C+ C KTF + +++ +H H E GP S
Sbjct: 13 FKCNECKKTFTQSSSLTVHQRIHTGEKPSGPSS 45
>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 = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 16/34 (47%)
Query: 160 QFACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ CS C K F R + + MH H E GP S
Sbjct: 12 HYECSECGKAFARKSTLIMHQRIHTGEKPSGPSS 45
>pdb|2YTQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
775- 807) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
+ CS C K F+ + + +HM H E GP S
Sbjct: 13 YGCSECGKAFSSKSYLIIHMRTHSGEKPSGPSS 45
>pdb|2EL4|A Chain A, Solution Structure Of The 15th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 9/25 (36%), Positives = 16/25 (64%)
Query: 242 AKPFMCRKCGKTFAVKGDWRTHEKN 266
KP+ C +C KTF++K H+++
Sbjct: 10 VKPYGCSQCAKTFSLKSQLIVHQRS 34
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 243 KPFMCRKCGKTFAVKGDWRTHEK 265
KP+ C +CGK FA K + H++
Sbjct: 11 KPYRCGECGKAFAQKANLTQHQR 33
>pdb|2EOK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
441- 469) Of Human Zinc Finger Protein 268
Length = 42
Score = 28.1 bits (61), Expect = 7.8, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 13/24 (54%)
Query: 241 GAKPFMCRKCGKTFAVKGDWRTHE 264
G KP++C CGK F K H+
Sbjct: 7 GEKPYVCSDCGKAFTFKSQLIVHQ 30
>pdb|2EPR|A Chain A, Solution Structure Of The Secound Zinc Finger Domain Of
Zinc Finger Protein 278
Length = 48
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 16/36 (44%), Gaps = 2/36 (5%)
Query: 160 QFACSICSKTFNRYNNMQMHMWGHGSE--YRKGPDS 193
Q AC IC K F ++ H H E Y GP S
Sbjct: 12 QVACEICGKIFRDVYHLNRHKLSHSGEKPYSSGPSS 47
>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 = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 15/32 (46%)
Query: 232 LQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTH 263
L H + G KPF CR C + F+ TH
Sbjct: 37 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 68
>pdb|2EOL|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
581- 609) Of Human Zinc Finger Protein 268
Length = 42
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 241 GAKPFMCRKCGKTFAVKGDWRTHEKN 266
G KP+ C CGK F +K H++
Sbjct: 7 GEKPYECTDCGKAFGLKSQLIIHQRT 32
>pdb|2EMZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
628- 660) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 17/33 (51%)
Query: 161 FACSICSKTFNRYNNMQMHMWGHGSEYRKGPDS 193
F C+ C K F R +++ H+ H E GP S
Sbjct: 13 FKCNECGKGFGRRSHLAGHLRLHSREKSSGPSS 45
>pdb|4DOZ|A Chain A, Crystal Structure Of Pyrococcus Furiosus Cmr2 (Cas10)
Length = 686
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 230 RTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLW 271
+ + F++ K + C CG+ A+ GD H+ N LW
Sbjct: 238 KVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHD-NLKSLW 278
>pdb|3UNG|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
pdb|3UR3|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
Length = 693
Score = 27.7 bits (60), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 226 LKDFRTLQTHFKRKHGAKPFMCRKCGKTFAVKGDWRTHEKNCGKLW 271
L + + + F++ K + C CG+ A+ GD H+ N LW
Sbjct: 249 LGERKVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHD-NLKSLW 293
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 0.135 0.442
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,359,618
Number of Sequences: 62578
Number of extensions: 361736
Number of successful extensions: 952
Number of sequences better than 100.0: 114
Number of HSP's better than 100.0 without gapping: 94
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 692
Number of HSP's gapped (non-prelim): 262
length of query: 324
length of database: 14,973,337
effective HSP length: 99
effective length of query: 225
effective length of database: 8,778,115
effective search space: 1975075875
effective search space used: 1975075875
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)