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= psy7453
(200 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 22/32 (68%)
Query: 166 HIRTHTGEKPYACGQCAFRSASVAGLHYHLKK 197
H+RTHTGEKPY C C + +A L YHL++
Sbjct: 23 HLRTHTGEKPYKCEFCEYAAAQKTSLRYHLER 54
>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 = 40.0 bits (92), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 29/61 (47%)
Query: 136 KSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHL 195
++ RT + C C + +R+H RTHTGEKPY C +C + LH H
Sbjct: 94 RAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQ 153
Query: 196 K 196
+
Sbjct: 154 R 154
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 114 CIYCKAVLSTNLNELIEHCRTCKSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGE 173
C C S + +L H RT P++ C C +R+H RTHTGE
Sbjct: 52 CPECGKSFS-DKKDLTRHQRT---HTGEKPYK----CPECGKSFSQRANLRAHQRTHTGE 103
Query: 174 KPYACGQCAFRSASVAGLHYHLK 196
KPYAC +C + +A L H +
Sbjct: 104 KPYACPECGKSFSQLAHLRAHQR 126
Score = 35.0 bits (79), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 35/83 (42%), Gaps = 8/83 (9%)
Query: 114 CIYCKAVLSTNLNELIEHCRTCKSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGE 173
C C S + + L EH RT P++ C C + + H RTHTGE
Sbjct: 24 CPECGKSFSRS-DHLAEHQRT---HTGEKPYK----CPECGKSFSDKKDLTRHQRTHTGE 75
Query: 174 KPYACGQCAFRSASVAGLHYHLK 196
KPY C +C + A L H +
Sbjct: 76 KPYKCPECGKSFSQRANLRAHQR 98
Score = 34.3 bits (77), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 19/41 (46%)
Query: 142 DPFRHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCA 182
+P + C C + H RTHTGEKPY C +C
Sbjct: 16 EPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPECG 56
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 22/47 (46%)
Query: 136 KSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCA 182
++ RT + C C + +H RTHTGEKPY C +C
Sbjct: 122 RAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECG 168
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/50 (44%), Positives = 28/50 (56%), Gaps = 2/50 (4%)
Query: 148 FVCYAC-DYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
F C C FS + G + HIRTHTGEKP+AC C + A++ H K
Sbjct: 35 FQCRICMRNFSQHTG-LNQHIRTHTGEKPFACDICGRKFATLHTRDRHTK 83
Score = 32.7 bits (73), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+CD + +HIR HTG+KP+ C C + GL+ H++
Sbjct: 11 SCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQHIR 55
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 28/58 (48%)
Query: 139 IRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
IR + F C C + +HIRTHTGEKP+AC C + A++ H K
Sbjct: 26 IRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRHTK 83
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+CD + +HIR HTG+KP+ C C + A L+ H++
Sbjct: 11 SCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIR 55
>pdb|1BBO|A Chain A, High-Resolution Solution Structure Of The Double Cys2His2
Zinc Finger From The Human Enhancer Binding Protein
Mbp-1
Length = 57
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 25/54 (46%)
Query: 147 KFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLKKTYH 200
K++C C ++ HIRTHT +PY C C F + L H+K H
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAH 54
>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 = 36.2 bits (82), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 27/49 (55%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+ C CDY + + + H+R H+ E+P+ C C + S + + L HL+
Sbjct: 37 YKCKTCDYAAADSSSLNKHLRIHSDERPFKCQICPYASRNSSQLTVHLR 85
>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 = 0.018, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.7 bits (60), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRIC 40
>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 = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 17/30 (56%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSDSSNLTRHIRIHTGQKPFQCRIC 40
>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 = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSRSADLTRHIRIHTGQKPFQCRIC 40
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 35.4 bits (80), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 23/42 (54%), Gaps = 5/42 (11%)
Query: 161 GCMRSHIRTHTGEKPYACGQC--AFRSASVAGLHYHLKKTYH 200
G S RTHTGEKPYAC C FR + +H+ K YH
Sbjct: 1 GSSGSSGRTHTGEKPYACSHCDKTFRQKQLLDMHF---KRYH 39
>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 = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSRSAELTRHIRIHTGQKPFQCRIC 40
>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 = 35.4 bits (80), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 51 THIRTHTGEKPFACDICGRKFARSDERKRHTK 82
Score = 27.3 bits (59), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + HIR HTG+KP+ C C
Sbjct: 10 SCDRRFSRSDELTRHIRIHTGQKPFQCRIC 39
>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 = 35.4 bits (80), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+ C C ++ H RTHTGEKPY C +C + + L H +
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQR 53
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 30/69 (43%), Gaps = 8/69 (11%)
Query: 114 CIYCKAVLSTNLNELIEHCRTCKSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTHTGE 173
C C S + N L +H RT P++ C C ++ H RTHTGE
Sbjct: 7 CPECGKSFSQSSN-LQKHQRT---HTGEKPYK----CPECGKSFSQSSDLQKHQRTHTGE 58
Query: 174 KPYACGQCA 182
KPY C +C
Sbjct: 59 KPYKCPECG 67
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 31.2 bits (69), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 17/30 (56%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD G + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSQSGSLTRHIRIHTGQKPFQCRIC 40
>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 = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 14/22 (63%), Positives = 17/22 (77%)
Query: 165 SHIRTHTGEKPYACGQCAFRSA 186
+HIRTHTGEKP+AC C + A
Sbjct: 21 THIRTHTGEKPFACDICGRKFA 42
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 35.0 bits (79), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
+HIRTHTGEKP+AC C + A H K
Sbjct: 52 THIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 152 ACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
+CD + HIR HTG+KP+ C C
Sbjct: 11 SCDRRFSRSDELTRHIRIHTGQKPFQCRIC 40
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 34.3 bits (77), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 20/38 (52%)
Query: 145 RHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCA 182
R ++ C C + + H RTHTGEKPY C +C
Sbjct: 16 RRRYKCDECGKSFSHSSDLSKHRRTHTGEKPYKCDECG 53
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 33.9 bits (76), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 2/37 (5%)
Query: 163 MRSHIRTHTGEKPYAC--GQCAFRSASVAGLHYHLKK 197
+++H+RTHTGEKPY C C +R A L H +K
Sbjct: 33 LKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRK 69
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 2/64 (3%)
Query: 136 KSMIRTDPFRHKFVC--YACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHY 193
K+ +RT + C CD+ + H R HTG KP+ CG C + L
Sbjct: 34 KAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGVCNRSFSRSDHLAL 93
Query: 194 HLKK 197
H+K+
Sbjct: 94 HMKR 97
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 33.5 bits (75), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 15/58 (25%)
Query: 151 YACDYFSYNIGC---------MRSHIRTHTGEKPYACGQ--CAFRSASVAGLHYHLKK 197
+ CDY GC +++H+RTHTGEKPY C C ++ A L H +K
Sbjct: 6 HTCDY----AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK 59
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 151 YACDYFSYNIGCMRS-----HIRTHTGEKPYACGQC--AFRSASVAGLH 192
Y CD+ RS H R HTG +P+ C +C AF + LH
Sbjct: 36 YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALH 84
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 29/58 (50%), Gaps = 15/58 (25%)
Query: 151 YACDYFSYNIGC---------MRSHIRTHTGEKPYACGQ--CAFRSASVAGLHYHLKK 197
+ CDY GC +++H+RTHTGEKPY C C ++ A L H +K
Sbjct: 7 HTCDY----AGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK 60
Score = 27.3 bits (59), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 7/49 (14%)
Query: 151 YACDYFSYNIGCMRS-----HIRTHTGEKPYACGQC--AFRSASVAGLH 192
Y CD+ RS H R HTG +P+ C +C AF + LH
Sbjct: 37 YHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKCDRAFSRSDHLALH 85
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 18/34 (52%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQC 181
FVC C ++ H R+HT EKPY CG C
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKPYPCGLC 36
>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 = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEKPYAC 178
F C C +++H RTHTGEKP++C
Sbjct: 67 FQCKTCQRKFSRSDHLKTHTRTHTGEKPFSC 97
Score = 30.0 bits (66), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 148 FVCY--ACDYFSYNIGCMRSHIRTHTGEKPYACG--QCAFRSASVAGLHYHLKK 197
F+C C+ + + ++ H R HTGEKPY C C R + L H ++
Sbjct: 7 FMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR 60
>pdb|2ELT|A Chain A, Solution Structure Of The 3rd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 31.2 bits (69), Expect = 0.35, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 17/24 (70%)
Query: 174 KPYACGQCAFRSASVAGLHYHLKK 197
KPY C QC++ SA A L+ HL+K
Sbjct: 8 KPYKCPQCSYASAIKANLNVHLRK 31
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 151 YACDY----FSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
Y CD F Y G + SH HTGEKPY C C + A L H +
Sbjct: 18 YKCDRCQASFRYK-GNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
>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 = 30.8 bits (68), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%), Gaps = 3/29 (10%)
Query: 163 MRSHIRTHTGEKPYA---CGQCAFRSASV 188
++ H R HTGEKP+ CG+C FR ++
Sbjct: 23 LKVHNRKHTGEKPFECPKCGKCYFRKENL 51
Score = 30.0 bits (66), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 35/89 (39%), Gaps = 6/89 (6%)
Query: 112 PF-CIYCKAVLSTNLNELIEHCRTCKSMIRTDPFRHKFVCYACDYFSYNIGCMRSHIRTH 170
PF C C N L R C M R++ F C C +R H+ +H
Sbjct: 35 PFECPKCGKCYFRKENLLEHEARNC--MNRSEQV---FTCSVCQETFRRRMELRLHMVSH 89
Query: 171 TGEKPYACGQCAFRSASVAGLHYHLKKTY 199
TGE PY C C+ + L H+ K +
Sbjct: 90 TGEMPYKCSSCSQQFMQKKDLQSHMIKLH 118
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 30.4 bits (67), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 14/31 (45%), Positives = 18/31 (58%)
Query: 166 HIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
H R HTGEKPY C +C + +GL H +
Sbjct: 33 HQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 30.4 bits (67), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 15/16 (93%)
Query: 163 MRSHIRTHTGEKPYAC 178
+++H+R+HTGEKPY C
Sbjct: 85 LKTHLRSHTGEKPYMC 100
>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 = 0.73, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 15/16 (93%)
Query: 163 MRSHIRTHTGEKPYAC 178
+++H RTHTGEKP++C
Sbjct: 35 LKAHTRTHTGEKPFSC 50
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 14/16 (87%)
Query: 163 MRSHIRTHTGEKPYAC 178
+R+H+R HTG++PY C
Sbjct: 80 LRTHVRIHTGDRPYVC 95
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 45
Score = 28.9 bits (63), Expect = 1.8, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 171 TGEKPYACGQCAFRSASVAGLHYHLK 196
+GEKPY+C C R + YH++
Sbjct: 6 SGEKPYSCPVCGLRFKRKDRMSYHVR 31
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 147 KFVCYACDYFSYNIGCMRS-----HIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
K YAC S + RS HIR HTG+KP+ C C + L H++
Sbjct: 16 KMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIR 70
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 149 VCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLK 196
C C ++ + H +H+GEKPY+C C R + YH++
Sbjct: 9 ACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVR 56
>pdb|3IUF|A Chain A, Crystal Structure Of The C2h2-Type Zinc Finger Domain Of
Human Ubi-D4
Length = 48
Score = 28.9 bits (63), Expect = 2.2, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 173 EKPYACGQCAFRSASVAGLHYHLKKTY 199
+KPYAC C R + GL YH ++
Sbjct: 5 DKPYACDICGKRYKNRPGLSYHYAHSH 31
>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 = 3.1, Method: Composition-based stats.
Identities = 11/35 (31%), Positives = 18/35 (51%)
Query: 145 RHKFVCYACDYFSYNIGCMRSHIRTHTGEKPYACG 179
R + C C ++ + H +H+GEKPY+ G
Sbjct: 10 RKQVACEICGKIFRDVYHLNRHKLSHSGEKPYSSG 44
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 165 SHIRTHTGEKPYAC 178
+HIR HTGEKP+ C
Sbjct: 80 NHIRVHTGEKPFPC 93
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 13/16 (81%)
Query: 163 MRSHIRTHTGEKPYAC 178
++ H RTHTGEKP+ C
Sbjct: 108 LKIHKRTHTGEKPFKC 123
>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 = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 163 MRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLKK 197
+R H R H ++P+ C C+F + + L H+KK
Sbjct: 25 LRIHERIHCTDRPFKCNYCSFDTKQPSNLSKHMKK 59
>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 = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 23/43 (53%), Gaps = 8/43 (18%)
Query: 147 KFVCYACDYF---SYNIGCMRSHIRTHTGEKPYACGQC--AFR 184
+F+C C SYN+ H RTHT E+PY C C AFR
Sbjct: 17 EFICKFCGRHFTKSYNLLI---HERTHTDERPYTCDICHKAFR 56
>pdb|2YRH|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(699- 729) From Zinc Finger Protein 473
Length = 44
Score = 27.7 bits (60), Expect = 4.8, Method: Composition-based stats.
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 145 RHKFVCYACDYFSYNIGCMRSHIRTHTGEKP 175
+ VC C C+ H R H+GEKP
Sbjct: 8 KKPLVCNECGKTFRQSSCLSKHQRIHSGEKP 38
>pdb|2LVR|A Chain A, Solution Structure Of Miz-1 Zinc Finger 8
Length = 30
Score = 27.3 bits (59), Expect = 5.3, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEK 174
+VC C + G ++ H+R HTGEK
Sbjct: 4 YVCIHCQRQFADPGALQRHVRIHTGEK 30
>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 = 27.3 bits (59), Expect = 5.8, Method: Composition-based stats.
Identities = 15/29 (51%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 148 FVCYAC-DYFSYNIGCMRSHIRTHTGEKP 175
F C C F NI + SH+R HTGEKP
Sbjct: 13 FKCKECGKAFRQNIH-LASHLRIHTGEKP 40
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 27.3 bits (59), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 165 SHIRTHTGEKPYACGQCAFRSASVAGLHYHL 195
H++ HTG KPY C CA R H H+
Sbjct: 55 GHMKIHTGIKPYECNICAKRFMWRDSFHRHV 85
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 15/50 (30%), Positives = 22/50 (44%)
Query: 148 FVCYACDYFSYNIGCMRSHIRTHTGEKPYACGQCAFRSASVAGLHYHLKK 197
+ C C + M+ H HTGEKP+ C C + + L H +K
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFIHTGEKPHKCQVCGKAFSQSSNLITHSRK 79
>pdb|2EME|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
725- 757) Of Human Zinc Finger Protein 473
Length = 46
Score = 26.9 bits (58), Expect = 6.8, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 14/28 (50%), Gaps = 3/28 (10%)
Query: 151 YACDYFSYNIGC---MRSHIRTHTGEKP 175
Y CDY G + H R HTGEKP
Sbjct: 13 YVCDYCGKAFGLSAELVRHQRIHTGEKP 40
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 26.9 bits (58), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 161 GCMRSHIRTHTGEKPYACGQCAFR 184
G S RTH+GEKPY C C R
Sbjct: 1 GSSGSSGRTHSGEKPYECYICHAR 24
>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 = 26.9 bits (58), Expect = 7.3, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 15/33 (45%), Gaps = 4/33 (12%)
Query: 143 PFRHKFVCYACDYFSYNIGCMRSHIRTHTGEKP 175
PFR C CD + SH HTGEKP
Sbjct: 12 PFR----CDTCDKSFRQRSALNSHRMIHTGEKP 40
>pdb|2EOG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
693- 723) Of Human Zinc Finger Protein 268
Length = 44
Score = 26.9 bits (58), Expect = 7.4, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 171 TGEKPYACGQC--AFRSASVAGLH 192
+G KPY C +C AFRS S +H
Sbjct: 6 SGVKPYGCSECGKAFRSKSYLIIH 29
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 26.6 bits (57), Expect = 10.0, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%), Gaps = 2/24 (8%)
Query: 171 TGEKPYACGQC--AFRSASVAGLH 192
+GEKPY C +C AF +S +H
Sbjct: 6 SGEKPYVCQECGKAFTQSSCLSIH 29
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
0.328 0.137 0.436
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,518,612
Number of Sequences: 62578
Number of extensions: 136225
Number of successful extensions: 555
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 61
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 435
Number of HSP's gapped (non-prelim): 132
length of query: 200
length of database: 14,973,337
effective HSP length: 94
effective length of query: 106
effective length of database: 9,091,005
effective search space: 963646530
effective search space used: 963646530
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 49 (23.5 bits)