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= 048459
(362 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1TF6|A Chain A, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
pdb|1TF6|D Chain D, Co-crystal Structure Of Xenopus Tfiiia Zinc Finger Domain
Bound To The 5s Ribosomal Rna Gene Internal Control
Region
Length = 190
Score = 79.7 bits (195), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 53/158 (33%), Positives = 75/158 (47%), Gaps = 12/158 (7%)
Query: 71 ECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIE 129
+CGA++ K L+ H+ H E+PF C + C + HLTRH L H G K F C +
Sbjct: 19 DCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSD 78
Query: 130 NCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
C+ FT + NMK+H H+ Y+C CGK FK ++L+ H+ SH
Sbjct: 79 GCDLRFTTKANMKKHFNRFHNIKICV--------YVCHFENCGKAFKKHNQLKVHQFSHT 130
Query: 190 NLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIPCE 227
E C GC K F+ L+ H + H PC+
Sbjct: 131 QQLPYE--CPHEGCDKRFSLPSRLKRHEKV-HAGYPCK 165
Score = 57.0 bits (136), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 59/220 (26%), Positives = 86/220 (39%), Gaps = 41/220 (18%)
Query: 90 LLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKEL 148
++ + + CS DC A+Y + L HL +H G K F C E C + FT ++ RH L
Sbjct: 8 VVYKRYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLTRH--SL 65
Query: 149 HHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFT 208
H G +K + C GC F + +++H + N+ C C K F
Sbjct: 66 THTG--------EKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFK 117
Query: 209 NKQCLEAHIRSCHQYIPCEICGSMQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTN 268
L+ H S Q +P E C +GC FS
Sbjct: 118 KHNQLKVHQFSHTQQLPYE----------------------------CPHEGCDKRFSLP 149
Query: 269 SNLRQH--VKAVHYEIKPFACSFFGCGMRFAFKHVRDNHE 306
S L++H V A + K +CSF G KHV + H+
Sbjct: 150 SRLKRHEKVHAGYPCKKDDSCSFVGKTWTLYLKHVAECHQ 189
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 68/172 (39%), Gaps = 27/172 (15%)
Query: 23 RRYYCDY--CGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPA 80
+RY C + CG +K + +H+ H E +G KG F
Sbjct: 11 KRYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKG------------FTSLH 58
Query: 81 YLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLR-HQGKL--FKCPIENCNREFTI 137
+L +H L+H E+ F C D C + K ++ +H R H K+ + C ENC + F
Sbjct: 59 HLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKK 118
Query: 138 QGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
+K H Q Y C GC K F S+L++HE H
Sbjct: 119 HNQLKVH----------QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHA 160
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 61/151 (40%), Gaps = 9/151 (5%)
Query: 162 KQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAH--IRS 219
K+YIC CG + KL+ H H C E GC K FT+ L H +
Sbjct: 11 KRYICSFADCGAAYNKNWKLQAHLCKHTGEKPFP--CKEEGCEKGFTSLHHLTRHSLTHT 68
Query: 220 CHQYIPCEICG---SMQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVK 276
+ C+ G K N+K+H + + C F+ C +F ++ L+ H +
Sbjct: 69 GEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYV-CHFENCGKAFKKHNQLKVH-Q 126
Query: 277 AVHYEIKPFACSFFGCGMRFAFKHVRDNHEK 307
H + P+ C GC RF+ HEK
Sbjct: 127 FSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 157
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 24/52 (46%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
E CG +FKK LK H SH + P+ C + C + L RH H G
Sbjct: 110 ENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 161
>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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 61/193 (31%), Positives = 90/193 (46%), Gaps = 24/193 (12%)
Query: 63 GVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG- 121
G + C ECG SF + +L +H +H E+P++C +C S+ K LTRH H G
Sbjct: 18 GEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKC--PECGKSFSDKKDLTRHQRTHTGE 75
Query: 122 KLFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKL 181
K +KCP C + F+ + N++ H + T +G+ K Y C E CGK F + L
Sbjct: 76 KPYKCP--ECGKSFSQRANLRAHQR---------THTGE-KPYACPE--CGKSFSQLAHL 121
Query: 182 RQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIP--CEICG-SMQLKKNI 238
R H+ +H + P C K F+ + L H R+ P C CG S + +
Sbjct: 122 RAHQRTHTGEKPYKC----PECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDAL 177
Query: 239 KRHVRTHEARDLS 251
H RTH + S
Sbjct: 178 NVHQRTHTGKKTS 190
Score = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/123 (29%), Positives = 60/123 (48%), Gaps = 19/123 (15%)
Query: 25 YYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
Y C CG S+++ + +H +H G + C ECG SF + A+L+
Sbjct: 78 YKCPECGKSFSQRANLRAHQRTH--------------TGEKPYACPECGKSFSQLAHLRA 123
Query: 85 HMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKR 143
H +H E+P++C +C S+ R+D+L H H G K +KCP C + F+ + +
Sbjct: 124 HQRTHTGEKPYKC--PECGKSFSREDNLHTHQRTHTGEKPYKCP--ECGKSFSRRDALNV 179
Query: 144 HVK 146
H +
Sbjct: 180 HQR 182
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 31/80 (38%), Positives = 43/80 (53%), Gaps = 1/80 (1%)
Query: 71 ECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIE 129
+CGA++ K L+ H+ H E+PF C + C + HLTRH L H G K F C +
Sbjct: 10 DCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSD 69
Query: 130 NCNREFTIQGNMKRHVKELH 149
C+ FT + NMK+H H
Sbjct: 70 GCDLRFTTKANMKKHFNRFH 89
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 44/96 (45%), Gaps = 11/96 (11%)
Query: 97 CSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHHEGTTS 155
CS DC A+Y + L HL +H G K F C E C + FT ++ RH L H G
Sbjct: 6 CSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRH--SLTHTG--- 60
Query: 156 TDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNL 191
+K + C GC F + +++H + N+
Sbjct: 61 -----EKNFTCDSDGCDLRFTTKANMKKHFNRFHNI 91
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 42/118 (35%), Gaps = 30/118 (25%)
Query: 162 KQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCH 221
K+YIC CG + KL+ H H C E GC K FT S H
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAHLSKHTGEKPFP--CKEEGCEKGFT----------SLH 49
Query: 222 QYIPCEICGSMQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVKAVH 279
+ RH TH + C GC L F+T +N+++H H
Sbjct: 50 H---------------LTRHSLTHTGE---KNFTCDSDGCDLRFTTKANMKKHFNRFH 89
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 14/98 (14%)
Query: 23 RRYYCDY--CGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPA 80
+RY C + CG +K + +H++ H E K C E C F
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAHLSKHTGE-----------KPFPCKE-EGCEKGFTSLH 49
Query: 81 YLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLR 118
+L +H L+H E+ F C D C + K ++ +H R
Sbjct: 50 HLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNR 87
>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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 49/86 (56%), Gaps = 1/86 (1%)
Query: 61 TKGVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQ 120
T G + + C ECG +F + + LK+H L H E+PF+C+ + C + +L H+ H
Sbjct: 29 THGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHT 88
Query: 121 G-KLFKCPIENCNREFTIQGNMKRHV 145
G + + CP + CN++F N+K H+
Sbjct: 89 GDRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 34/105 (32%), Positives = 51/105 (48%), Gaps = 12/105 (11%)
Query: 198 CSEPGCMKYFTNKQCLEAHIRSCHQYIP----CEICGSMQLKKN-IKRHVRTHEARDLSE 252
C GC K F + + H+ H + P C CG ++ + +KRH H +
Sbjct: 8 CPHKGCTKMFRDNSAMRKHL---HTHGPRVHVCAECGKAFVESSKLKRHQLVHTG---EK 61
Query: 253 RIKCQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
+C F+GC FS + NLR HV+ +H +P+ C F GC +FA
Sbjct: 62 PFQCTFEGCGKRFSLDFNLRTHVR-IHTGDRPYVCPFDGCNKKFA 105
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/154 (25%), Positives = 61/154 (39%), Gaps = 43/154 (27%)
Query: 122 KLFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKL 181
+ CP + C + F M++H LH G + ++C E CGK F +SKL
Sbjct: 4 RTIACPHKGCTKMFRDNSAMRKH---LHTHGP--------RVHVCAE--CGKAFVESSKL 50
Query: 182 RQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIPCEICGSMQLKKNIKRH 241
++H+ H + C+ GC K F+ L N++ H
Sbjct: 51 KRHQLVHTGEKPFQ--CTFEGCGKRFS-------------------------LDFNLRTH 83
Query: 242 VRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHV 275
VR H C F GC F+ ++NL+ H+
Sbjct: 84 VRIHTG---DRPYVCPFDGCNKKFAQSTNLKSHI 114
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 62 KGVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
K QC T E CG F L+ H+ H +RP+ C D C+ + + +L H+L H
Sbjct: 61 KPFQC-TFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 28/71 (39%), Gaps = 26/71 (36%)
Query: 254 IKCQFKGCLLSFSTNSNLRQHV--------------------------KAVHYEIKPFAC 287
I C KGC F NS +R+H+ + VH KPF C
Sbjct: 6 IACPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQC 65
Query: 288 SFFGCGMRFAF 298
+F GCG RF+
Sbjct: 66 TFEGCGKRFSL 76
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 53/110 (48%), Gaps = 10/110 (9%)
Query: 76 FKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNRE 134
FK L HM H E+P +C+ + C SY R ++L HL H G K + C E C++
Sbjct: 49 FKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKA 108
Query: 135 FTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQH 184
F+ + +H H ++K Y+C+ GC K + S LR+H
Sbjct: 109 FSNASDRAKHQNRTH---------SNEKPYVCKLPGCTKRYTDPSSLRKH 149
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 55/112 (49%), Gaps = 14/112 (12%)
Query: 112 LTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIG 170
L H+ RH G K KC E C + ++ N+K H++ H G +K Y+C+ G
Sbjct: 55 LVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRS--HTG--------EKPYMCEHEG 104
Query: 171 CGKVFKYASKLRQHED-SHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCH 221
C K F AS +H++ +H N C PGC K +T+ L H+++ H
Sbjct: 105 CSKAFSNASDRAKHQNRTHSNEKPY--VCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 67/154 (43%), Gaps = 17/154 (11%)
Query: 166 CQEIGCGKVFKYASKLRQHEDS-HVNLDSVEAFCSEPGC---MKYFTNKQCLEAHIRSCH 221
C+ GC + F +L H +S H++ + E C GC ++ F + L H+R
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHT 63
Query: 222 QYIP--CEICG---SMQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVK 276
P C G S +N+K H+R+H + C+ +GC +FS S+ +H
Sbjct: 64 GEKPHKCTFEGCRKSYSRLENLKTHLRSHTG---EKPYMCEHEGCSKAFSNASDRAKHQN 120
Query: 277 AVHYEIKPFACSFFGCGMRFA-----FKHVRDNH 305
H KP+ C GC R+ KHV+ H
Sbjct: 121 RTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 44/161 (27%), Positives = 70/161 (43%), Gaps = 17/161 (10%)
Query: 126 CPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCG---KVFKYASKLR 182
C + C++EF Q + H+ H G++K+++C GC + FK L
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEH-------IHGERKEFVCHWGGCSRELRPFKAQYMLV 56
Query: 183 QHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIP--CEICGSMQLKKNIKR 240
H H + C+ GC K ++ + L+ H+RS P CE G + N
Sbjct: 57 VHMRRHTGEKPHK--CTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASD 114
Query: 241 HVRTHEARDLSER--IKCQFKGCLLSFSTNSNLRQHVKAVH 279
+ H+ R S C+ GC ++ S+LR+HVK VH
Sbjct: 115 RAK-HQNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/124 (29%), Positives = 54/124 (43%), Gaps = 9/124 (7%)
Query: 195 EAFCSEPGCMKYFTNKQCLEAHIRSCH-----QYIPCEICGSMQLKKNIKRH--VRTHEA 247
E C GC + F +++ L HI S H + C G + + K + H
Sbjct: 1 ETDCRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMR 60
Query: 248 RDLSERI-KCQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFAFKHVRDNHE 306
R E+ KC F+GC S+S NL+ H+++ H KP+ C GC F+ R H+
Sbjct: 61 RHTGEKPHKCTFEGCRKSYSRLENLKTHLRS-HTGEKPYMCEHEGCSKAFSNASDRAKHQ 119
Query: 307 KSGH 310
H
Sbjct: 120 NRTH 123
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 30/88 (34%), Positives = 50/88 (56%), Gaps = 5/88 (5%)
Query: 62 KGVQCNTCE--ECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
K +TC+ CG ++ K ++LK H+ +H E+P+ C D C + R D LTRH +H
Sbjct: 1 KRTATHTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKH 60
Query: 120 QG-KLFKCPIENCNREFTIQGNMKRHVK 146
G + F+C + C+R F+ ++ H+K
Sbjct: 61 TGHRPFQC--QKCDRAFSRSDHLALHMK 86
Score = 44.7 bits (104), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 42/95 (44%), Gaps = 16/95 (16%)
Query: 27 CDY--CGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
CDY CG +K S + +H+ +H E D DG CG F + L +
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDG------------CGWKFARSDELTR 55
Query: 85 HMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
H H RPF+C C ++ R DHL H+ RH
Sbjct: 56 HYRKHTGHRPFQCQ--KCDRAFSRSDHLALHMKRH 88
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
C + GC +++ +S+L+ H++ H KP+ C + GCG +FA
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLR-THTGEKPYHCDWDGCGWKFA 48
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 34/86 (39%), Gaps = 9/86 (10%)
Query: 164 YICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIR--SCH 221
+ C GCGK + +S L+ H +H C GC F L H R + H
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYH--CDWDGCGWKFARSDELTRHYRKHTGH 63
Query: 222 QYIPCEICG-----SMQLKKNIKRHV 242
+ C+ C S L ++KRH
Sbjct: 64 RPFQCQKCDRAFSRSDHLALHMKRHF 89
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 126 CPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHE 185
C C + +T ++K H++ H G +K Y C GCG F + +L +H
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRT--HTG--------EKPYHCDWDGCGWKFARSDELTRHY 57
Query: 186 DSHVN 190
H
Sbjct: 58 RKHTG 62
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 72 CGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIEN 130
CG ++ K ++LK H+ +H E+P+ C D C + R D LTRH +H G + F+C +
Sbjct: 14 CGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQC--QK 71
Query: 131 CNREFTIQGNMKRHVK 146
C+R F+ ++ H+K
Sbjct: 72 CDRAFSRSDHLALHMK 87
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 42/95 (44%), Gaps = 16/95 (16%)
Query: 27 CDY--CGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
CDY CG +K S + +H+ +H E D DG CG F + L +
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDG------------CGWKFARSDELTR 56
Query: 85 HMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
H H RPF+C C ++ R DHL H+ RH
Sbjct: 57 HYRKHTGHRPFQCQ--KCDRAFSRSDHLALHMKRH 89
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
C + GC +++ +S+L+ H++ H KP+ C + GCG +FA
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLR-THTGEKPYHCDWDGCGWKFA 49
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 34/86 (39%), Gaps = 9/86 (10%)
Query: 164 YICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIR--SCH 221
+ C GCGK + +S L+ H +H C GC F L H R + H
Sbjct: 7 HTCDYAGCGKTYTKSSHLKAHLRTHTGEKPYH--CDWDGCGWKFARSDELTRHYRKHTGH 64
Query: 222 QYIPCEICG-----SMQLKKNIKRHV 242
+ C+ C S L ++KRH
Sbjct: 65 RPFQCQKCDRAFSRSDHLALHMKRHF 90
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/65 (26%), Positives = 27/65 (41%), Gaps = 10/65 (15%)
Query: 126 CPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHE 185
C C + +T ++K H++ H G +K Y C GCG F + +L +H
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRT--HTG--------EKPYHCDWDGCGWKFARSDELTRHY 58
Query: 186 DSHVN 190
H
Sbjct: 59 RKHTG 63
>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 = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 37/118 (31%), Positives = 59/118 (50%), Gaps = 13/118 (11%)
Query: 72 CGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIEN 130
C + K ++L+ H H E+P++C DC + R D L RH RH G K F+C +
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPFQC--KT 71
Query: 131 CNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSH 188
C R+F+ ++K H T T +G+ K + C+ C K F + +L +H + H
Sbjct: 72 CQRKFSRSDHLKTH---------TRTHTGE-KPFSCRWPSCQKKFARSDELVRHHNMH 119
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 53/126 (42%), Gaps = 15/126 (11%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHH 150
+RPF C+ C+ Y + HL H +H G K ++C ++C R F+ +KRH + H
Sbjct: 4 KRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR--H 61
Query: 151 EGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNK 210
G K + C+ C + F + L+ H +H C P C K F
Sbjct: 62 TGV--------KPFQCK--TCQRKFSRSDHLKTHTRTHTGEKPFS--CRWPSCQKKFARS 109
Query: 211 QCLEAH 216
L H
Sbjct: 110 DELVRH 115
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 46/115 (40%), Gaps = 22/115 (19%)
Query: 21 DVRRYYCDYCGICRSKKSLILSHIASHH-------------KEDEERVDGDGETK----- 62
+ R + C Y G +K+ LSH+ H K+ E R + K
Sbjct: 3 EKRPFMCAYPGC--NKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR 60
Query: 63 --GVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
GV+ C+ C F + +LK H +H E+PF C C + R D L RH
Sbjct: 61 HTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 32/109 (29%), Positives = 45/109 (41%), Gaps = 19/109 (17%)
Query: 198 CSEPGCMKYFTNKQCLEAHIRSCHQYIP-------CE--ICGSMQLKKNIKRHVRTHEAR 248
C+ PGC K + L+ H R P CE S QLK++ +RH
Sbjct: 9 CAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPF- 67
Query: 249 DLSERIKCQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
Q K C FS + +L+ H + H KPF+C + C +FA
Sbjct: 68 --------QCKTCQRKFSRSDHLKTHTR-THTGEKPFSCRWPSCQKKFA 107
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 50/118 (42%), Gaps = 4/118 (3%)
Query: 158 SGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHI 217
+ +++ ++C GC K + S L+ H H + C C + F+ L+ H
Sbjct: 1 ASEKRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQ--CDFKDCERRFSRSDQLKRHQ 58
Query: 218 RSCHQYIPCEICGSMQLKKNIKRHVRTHEARDLSER-IKCQFKGCLLSFSTNSNLRQH 274
R H + C + Q K + H++TH E+ C++ C F+ + L +H
Sbjct: 59 RR-HTGVKPFQCKTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 45/76 (59%), Gaps = 3/76 (3%)
Query: 72 CGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIEN 130
C + K ++LK H+ +H E+P++C+ + C + R D LTRH +H G K F+C +
Sbjct: 23 CTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKPFQCGV-- 80
Query: 131 CNREFTIQGNMKRHVK 146
CNR F+ ++ H+K
Sbjct: 81 CNRSFSRSDHLALHMK 96
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 35/106 (33%), Positives = 50/106 (47%), Gaps = 16/106 (15%)
Query: 17 PKSRDVRRYYCDYCGICR--SKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGA 74
P R +YCDY G + +K S + +H+ +H E K +C T E C
Sbjct: 8 PDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGE-----------KPYKC-TWEGCDW 55
Query: 75 SFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQ 120
F + L +H H +PF+C V C+ S+ R DHL H+ RHQ
Sbjct: 56 RFARSDELTRHYRKHTGAKPFQCGV--CNRSFSRSDHLALHMKRHQ 99
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
C + GC ++ +S+L+ H++ H KP+ C++ GC RFA
Sbjct: 18 CDYPGCTKVYTKSSHLKAHLR-THTGEKPYKCTWEGCDWRFA 58
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 35/92 (38%), Gaps = 29/92 (31%)
Query: 197 FCSEPGCMKYFTNKQCLEAHIRSCHQYIPCEICGSMQLKKNIKRHVRTHEARDLSERIKC 256
+C PGC K +T L+AH+ RTH + KC
Sbjct: 17 YCDYPGCTKVYTKSSHLKAHL-------------------------RTHTG---EKPYKC 48
Query: 257 QFKGCLLSFSTNSNLRQHVKAVHYEIKPFACS 288
++GC F+ + L +H + H KPF C
Sbjct: 49 TWEGCDWRFARSDELTRHYRK-HTGAKPFQCG 79
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 23/52 (44%), Gaps = 1/52 (1%)
Query: 97 CSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKE 147
C C Y + HL HL H G K +KC E C+ F + RH ++
Sbjct: 18 CDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRK 69
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 41/98 (41%), Gaps = 5/98 (5%)
Query: 152 GTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQ 211
G++ D ++ + C GC KV+ +S L+ H +H + C+ GC F
Sbjct: 4 GSSGPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYK--CTWEGCDWRFARSD 61
Query: 212 CLEAHIRSCHQYIP--CEICG-SMQLKKNIKRHVRTHE 246
L H R P C +C S ++ H++ H+
Sbjct: 62 ELTRHYRKHTGAKPFQCGVCNRSFSRSDHLALHMKRHQ 99
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 50/90 (55%), Gaps = 3/90 (3%)
Query: 61 TKGVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQ 120
+ G CE CG F+ +L +H LSH E+P+ C V C ++RKD ++ H+ H
Sbjct: 2 SSGSSGVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPV--CGLRFKRKDRMSYHVRSHD 59
Query: 121 GKLFKCPI-ENCNREFTIQGNMKRHVKELH 149
G + K I ++C + F+ ++ H+K++H
Sbjct: 60 GSVGKPYICQSCGKGFSRPDHLNGHIKQVH 89
>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 = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 32/98 (32%), Positives = 47/98 (47%), Gaps = 16/98 (16%)
Query: 25 YYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
Y C CG S+ S + H +H G + C ECG SF + + L++
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTH--------------TGEKPYKCPECGKSFSQSSDLQK 50
Query: 85 HMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQGK 122
H +H E+P++C +C S+ R DHL+RH HQ K
Sbjct: 51 HQRTHTGEKPYKC--PECGKSFSRSDHLSRHQRTHQNK 86
Score = 48.5 bits (114), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 44/79 (55%), Gaps = 5/79 (6%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCP 127
C ECG SF + + L++H +H E+P++C +C S+ + L +H H G K +KCP
Sbjct: 7 CPECGKSFSQSSNLQKHQRTHTGEKPYKC--PECGKSFSQSSDLQKHQRTHTGEKPYKCP 64
Query: 128 IENCNREFTIQGNMKRHVK 146
C + F+ ++ RH +
Sbjct: 65 --ECGKSFSRSDHLSRHQR 81
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/101 (29%), Positives = 53/101 (52%), Gaps = 17/101 (16%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+E+P++C +C S+ + +L +H H G K +KCP C + F+ ++++H +
Sbjct: 1 MEKPYKC--PECGKSFSQSSNLQKHQRTHTGEKPYKCP--ECGKSFSQSSDLQKHQR--- 53
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVN 190
T +G+ K Y C E CGK F + L +H+ +H N
Sbjct: 54 ------THTGE-KPYKCPE--CGKSFSRSDHLSRHQRTHQN 85
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 43/91 (47%), Gaps = 9/91 (9%)
Query: 161 QKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSC 220
+K Y C E CGK F +S L++H+ +H + P C K F+ L+ H R+
Sbjct: 2 EKPYKCPE--CGKSFSQSSNLQKHQRTHTGEKPYKC----PECGKSFSQSSDLQKHQRTH 55
Query: 221 HQYIP--CEICG-SMQLKKNIKRHVRTHEAR 248
P C CG S ++ RH RTH+ +
Sbjct: 56 TGEKPYKCPECGKSFSRSDHLSRHQRTHQNK 86
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 44/94 (46%), Gaps = 5/94 (5%)
Query: 70 EEC---GASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFK 125
EEC G SFK L H+ H E+PF C C + R ++L H H G K FK
Sbjct: 63 EECPREGKSFKAKYKLVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFK 122
Query: 126 CPIENCNREFTIQGNMKRHVKELHHEGTTSTDSG 159
C E C+R F + K+H+ +H + SG
Sbjct: 123 CEFEGCDRRFANSSDRKKHM-HVHTSDKSGPSSG 155
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 30/85 (35%), Positives = 39/85 (45%), Gaps = 8/85 (9%)
Query: 231 SMQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFF 290
S + K + H+R H + C F GC F+ + NL+ H K H KPF C F
Sbjct: 71 SFKAKYKLVNHIRVHTGE---KPFPCPFPGCGKIFARSENLKIH-KRTHTGEKPFKCEFE 126
Query: 291 GCGMRFAFKHVRDNHEKSGHHVYSS 315
GC RFA R H HV++S
Sbjct: 127 GCDRRFANSSDRKKH----MHVHTS 147
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 11/90 (12%)
Query: 105 SYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQ 163
S++ K L H+ H G K F CP C + F N+K H + T +G +K
Sbjct: 71 SFKAKYKLVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKR---------THTG-EKP 120
Query: 164 YICQEIGCGKVFKYASKLRQHEDSHVNLDS 193
+ C+ GC + F +S ++H H + S
Sbjct: 121 FKCEFEGCDRRFANSSDRKKHMHVHTSDKS 150
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 161 QKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHI 217
+K + C GCGK+F + L+ H+ +H + C GC + F N + H+
Sbjct: 88 EKPFPCPFPGCGKIFARSENLKIHKRTHTGEKPFK--CEFEGCDRRFANSSDRKKHM 142
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + A L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSRSAELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + R LTRH+ H G K F+C I C R F+ ++ H++
Sbjct: 1 MERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F + + ++H H+
Sbjct: 57 HTG--------EKPFACD--ICGRKFARSDERKRHTKIHL 86
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C D C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFAC--DICGRKFARSDERKRH 81
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 30/78 (38%), Positives = 41/78 (52%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + A L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSRSADLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 30/100 (30%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + R LTRH+ H G K F+C I C R F+ ++ H++
Sbjct: 1 MERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F + + ++H H+
Sbjct: 57 HTG--------EKPFACD--ICGRKFARSDERKRHTKIHL 86
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 81
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSQSGSLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + + LTRH+ H G K F+C I C R F+ ++ H++
Sbjct: 1 MERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F + + ++H H+
Sbjct: 57 HTG--------EKPFACDI--CGRKFARSDERKRHTKIHL 86
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C D C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFAC--DICGRKFARSDERKRH 81
>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 = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSDSSNLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 49/100 (49%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + +LTRH+ H G K F+C I C R F+ ++ H++
Sbjct: 1 MERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F + + ++H H+
Sbjct: 57 HTG--------EKPFACD--ICGRKFARSDERKRHTKIHL 86
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 81
Score = 27.7 bits (60), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%), Gaps = 1/32 (3%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFAC 287
C + C FS +SNL +H++ +H KPF C
Sbjct: 7 CPVESCDRRFSDSSNLTRHIR-IHTGQKPFQC 37
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 50/100 (50%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + R D LTRH+ H G K F+C I C R F+ ++ H++
Sbjct: 1 MERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F + + ++H H+
Sbjct: 57 HTG--------EKPFACD--ICGRKFARSDERKRHTKIHL 86
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 81
>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 = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 9 ESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 66
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 67 --CGRKFARSDERKRHTK 82
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 15/99 (15%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHH 150
ERP+ C V+ C + R D LTRH+ H G K F+C I C R F+ ++ H++ H
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT--H 56
Query: 151 EGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
G +K + C CG+ F + + ++H H+
Sbjct: 57 TG--------EKPFACD--ICGRKFARSDERKRHTKIHL 85
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 36 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 80
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H G K F C I
Sbjct: 10 ESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F KRH K
Sbjct: 68 --CGRKFARSDERKRHTK 83
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 49/99 (49%), Gaps = 15/99 (15%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELHH 150
ERP+ C V+ C + R D LTRH+ H G K F+C I C R F+ ++ H++ H
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRT--H 57
Query: 151 EGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
G +K + C CG+ F + + ++H H+
Sbjct: 58 TG--------EKPFACD--ICGRKFARSDERKRHTKIHL 86
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 37 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 81
>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 = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 33/48 (68%), Gaps = 2/48 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHL 116
CEECG KKP+ LK+H+ +H RP+ C+ C+ S++ K +LT+H+
Sbjct: 4 CEECGIRXKKPSMLKKHIRTHTDVRPYHCTY--CNFSFKTKGNLTKHM 49
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 27/65 (41%), Gaps = 14/65 (21%)
Query: 24 RYYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLK 83
+Y C+ CGI K S++ HI +H V+ C C SFK L
Sbjct: 1 KYICEECGIRXKKPSMLKKHIRTH--------------TDVRPYHCTYCNFSFKTKGNLT 46
Query: 84 QHMLS 88
+HM S
Sbjct: 47 KHMKS 51
>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 = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 43/84 (51%), Gaps = 9/84 (10%)
Query: 225 PCEICGS-MQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVKAVHYEIK 283
P E C K N+ H+R H + + +C+ C+ +FS ++ L QH++ H K
Sbjct: 8 PVESCDRRFSQKTNLDTHIRIHTGQ---KPFQCRI--CMRNFSQHTGLNQHIR-THTGEK 61
Query: 284 PFACSFFGCGMRFAFKHVRDNHEK 307
PFAC CG +FA H RD H K
Sbjct: 62 PFACDI--CGRKFATLHTRDRHTK 83
Score = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L H+ H ++PF+C + C ++ + L +H+ H G K F C I
Sbjct: 10 ESCDRRFSQKTNLDTHIRIHTGQKPFQCRI--CMRNFSQHTGLNQHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F RH K
Sbjct: 68 --CGRKFATLHTRDRHTK 83
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVK 146
+ERP+ C V+ C + +K +L H+ H G K F+C I C R F+ + +H++
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI--CMRNFSQHTGLNQHIR 55
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/76 (35%), Positives = 39/76 (51%), Gaps = 5/76 (6%)
Query: 71 ECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIE 129
+CG SF + +HM HL RP+ C V C ++ K HL H+ H G K ++C I
Sbjct: 14 QCGKSFTHKSQRDRHMSMHLGLRPYGCGV--CGKKFKMKHHLVGHMKIHTGIKPYECNI- 70
Query: 130 NCNREFTIQGNMKRHV 145
C + F + + RHV
Sbjct: 71 -CAKRFMWRDSFHRHV 85
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 63 GVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHL 116
G++ C CG FK +L HM H +P+ C++ C + +D RH+
Sbjct: 34 GLRPYGCGVCGKKFKMKHHLVGHMKIHTGIKPYECNI--CAKRFMWRDSFHRHV 85
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 27/48 (56%)
Query: 72 CGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
CG ++ K ++LK H +H E+PF CS C + R D L+RH H
Sbjct: 25 CGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 35.8 bits (81), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 29/50 (58%), Gaps = 4/50 (8%)
Query: 251 SERIK---CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFA 297
S RI+ C GC ++ +S+L+ H + H KPF+CS+ GC RFA
Sbjct: 12 SSRIRSHICSHPGCGKTYFKSSHLKAHTR-THTGEKPFSCSWKGCERRFA 60
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 2/63 (3%)
Query: 157 DSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAH 216
DS + +IC GCGK + +S L+ H +H CS GC + F L H
Sbjct: 11 DSSRIRSHICSHPGCGKTYFKSSHLKAHTRTHTGEKPFS--CSWKGCERRFARSDELSRH 68
Query: 217 IRS 219
R+
Sbjct: 69 RRT 71
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 21/49 (42%), Gaps = 1/49 (2%)
Query: 97 CSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRH 144
CS C +Y + HL H H G K F C + C R F + RH
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRH 68
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 40/80 (50%), Gaps = 5/80 (6%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCP 127
C+ CG SFK+ + L H+L H RP+ C C + +K + +H H G K KC
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYPCQY--CGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 128 IENCNREFTIQGNMKRHVKE 147
+ C + F+ N+ H ++
Sbjct: 62 V--CGKAFSQSSNLITHSRK 79
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 42/95 (44%), Gaps = 16/95 (16%)
Query: 27 CDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQHM 86
C+ CG C S+K + +H+ H GV+ C+ C + + L +H+
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCH--------------TGVKPYKCKTCDYAAADSSSLNKHL 56
Query: 87 LSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
H ERPF+C + C + R LT HL H G
Sbjct: 57 RIHSDERPFKCQI--CPYASRNSSQLTVHLRSHTG 89
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 38/92 (41%), Gaps = 7/92 (7%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCP 127
CE CG F + LK HM H +P++C C + L +HL H + FKC
Sbjct: 11 CEVCGKCFSRKDKLKTHMRCHTGVKPYKCKT--CDYAAADSSSLNKHLRIHSDERPFKCQ 68
Query: 128 IENCNREFTIQGNMKRHVKELHHEGTTSTDSG 159
I C + H++ H G + SG
Sbjct: 69 I--CPYASRNSSQLTVHLRS--HTGDSGPSSG 96
>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 = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 46/98 (46%), Gaps = 14/98 (14%)
Query: 25 YYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
+ C CG C +K +L H A + E+V TC C +F++ L+
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCMNRSEQVF-----------TCSVCQETFRRRMELRL 84
Query: 85 HMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLR-HQG 121
HM+SH E P++CS C + +K L H+++ H G
Sbjct: 85 HMVSHTGEMPYKCS--SCSQQFMQKKDLQSHMIKLHSG 120
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 53/123 (43%), Gaps = 35/123 (28%)
Query: 57 GDGETKGVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRC------------------- 97
G + GV+C TC + F YLK H H E+PF C
Sbjct: 1 GSSGSSGVECPTCHK---KFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEAR 57
Query: 98 ----------SVDDCHASYRRKDHLTRHLLRHQGKL-FKCPIENCNREFTIQGNMKRHVK 146
+ C ++RR+ L H++ H G++ +KC +C+++F + +++ H+
Sbjct: 58 NCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTGEMPYKC--SSCSQQFMQKKDLQSHMI 115
Query: 147 ELH 149
+LH
Sbjct: 116 KLH 118
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 9/84 (10%)
Query: 225 PCEICGS-MQLKKNIKRHVRTHEARDLSERIKCQFKGCLLSFSTNSNLRQHVKAVHYEIK 283
P E C K N+ H+R H + + +C+ C+ +FS ++L H++ H K
Sbjct: 8 PVESCDRRFSQKTNLDTHIRIHTGQ---KPFQCRI--CMRNFSQQASLNAHIR-THTGEK 61
Query: 284 PFACSFFGCGMRFAFKHVRDNHEK 307
PFAC CG +FA H R H K
Sbjct: 62 PFACDI--CGRKFATLHTRTRHTK 83
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 29/100 (29%), Positives = 47/100 (47%), Gaps = 15/100 (15%)
Query: 91 LERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
+ERP+ C V+ C + +K +L H+ H G K F+C I C R F+ Q ++ H++
Sbjct: 1 MERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRI--CMRNFSQQASLNAHIRT-- 56
Query: 150 HEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHV 189
H G +K + C CG+ F +H H+
Sbjct: 57 HTG--------EKPFACD--ICGRKFATLHTRTRHTKIHL 86
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPI 128
E C F + L H+ H ++PF+C + C ++ ++ L H+ H G K F C I
Sbjct: 10 ESCDRRFSQKTNLDTHIRIHTGQKPFQCRI--CMRNFSQQASLNAHIRTHTGEKPFACDI 67
Query: 129 ENCNREFTIQGNMKRHVK 146
C R+F RH K
Sbjct: 68 --CGRKFATLHTRTRHTK 83
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 39/86 (45%), Gaps = 10/86 (11%)
Query: 161 QKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSC 220
++ Y C C + F + L D+H+ + + + CM+ F+ + L AHIR+
Sbjct: 2 ERPYACPVESCDRRFSQKTNL----DTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTH 57
Query: 221 HQYIP--CEICGSMQLKKNIKRHVRT 244
P C+ICG +K H RT
Sbjct: 58 TGEKPFACDICG----RKFATLHTRT 79
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSV 99
C C +F + A L H+ +H E+PF C +
Sbjct: 37 CRICMRNFSQQASLNAHIRTHTGEKPFACDI 67
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 39/72 (54%), Gaps = 9/72 (12%)
Query: 82 LKQHMLSHLLE------RPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNRE 134
++ H +++LL RP+ C V+ C + R D LTRH+ H G K F+C I C R
Sbjct: 1 MEPHPMNNLLNYVVPKMRPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRN 58
Query: 135 FTIQGNMKRHVK 146
F+ ++ H++
Sbjct: 59 FSRSDHLTTHIR 70
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
E C F + L +H+ H ++PF+C + C ++ R DHLT H+ H
Sbjct: 25 ESCDRRFSRSDELTRHIRIHTGQKPFQCRI--CMRNFSRSDHLTTHIRTH 72
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 2/53 (3%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
C+ECG SF + L +H +H E+P++C D+C ++ ++ HL H H G
Sbjct: 21 CDECGKSFSHSSDLSKHRRTHTGEKPYKC--DECGKAFIQRSHLIGHHRVHTG 71
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 14/77 (18%)
Query: 18 KSRDVRRYYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFK 77
+ R+ RRY CD CG S S + H +H G + C+ECG +F
Sbjct: 12 QQRERRRYKCDECGKSFSHSSDLSKHRRTH--------------TGEKPYKCDECGKAFI 57
Query: 78 KPAYLKQHMLSHLLERP 94
+ ++L H H P
Sbjct: 58 QRSHLIGHHRVHTGSGP 74
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 33/57 (57%), Gaps = 3/57 (5%)
Query: 68 TCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLR-HQGKL 123
CE C +F + +LK+H SH E+P+ C + C+ ++ R+D L RH + H G L
Sbjct: 4 VCEVCTRAFARQEHLKRHYRSHTNEKPYPCGL--CNRAFTRRDLLIRHAQKIHSGNL 58
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 31/56 (55%), Gaps = 5/56 (8%)
Query: 95 FRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRHVKELH 149
F C V C ++ R++HL RH H K + C + CNR FT + + RH +++H
Sbjct: 3 FVCEV--CTRAFARQEHLKRHYRSHTNEKPYPCGL--CNRAFTRRDLLIRHAQKIH 54
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
C+ C ASF+ L H H E+P+RC++ C A + R +L H H G
Sbjct: 20 CDRCQASFRYKGNLASHKTVHTGEKPYRCNI--CGAQFNRPANLKTHTRIHSG 70
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 26/70 (37%), Gaps = 14/70 (20%)
Query: 25 YYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGASFKKPAYLKQ 84
Y CD C K + SH H E R C CGA F +PA LK
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKPYR--------------CNICGAQFNRPANLKT 63
Query: 85 HMLSHLLERP 94
H H E+P
Sbjct: 64 HTRIHSGEKP 73
>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 = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 29/53 (54%), Gaps = 5/53 (9%)
Query: 93 RPFRCSVDDCHASYRRKDHLTRHLLRHQG-KLFKCPIENCNREFTIQGNMKRH 144
+PF+C + C ++ R DHLT H+ H G K F C I C R+F KRH
Sbjct: 2 KPFQCRI--CMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 50
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C C +F + +L H+ +H E+PF C + C + R D RH
Sbjct: 6 CRICMRNFSRSDHLTTHIRTHTGEKPFACDI--CGRKFARSDERKRH 50
>pdb|2J7J|A Chain A, Invariance Of The Zinc Finger Module: A Comparison Of The
Free Structure With Those In Nucleic-Acid Complexes
Length = 85
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 95 FRCSVDDCHASYRRKDHLTRHLLRHQGKL-FKCPIENCNREFTIQGNMKRHVK 146
+ C ++C ++++ + L H H +L ++CP E C++ F++ +KRH K
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 24/52 (46%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
E CG +FKK LK H SH + P+ C + C + L RH H G
Sbjct: 7 ENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
Score = 31.6 bits (70), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 10/68 (14%)
Query: 123 LFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLR 182
++ C ENC + F +K H Q Y C GC K F S+L+
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVH----------QFSHTQQLPYECPHEGCDKRFSLPSRLK 50
Query: 183 QHEDSHVN 190
+HE H
Sbjct: 51 RHEKVHAG 58
Score = 31.2 bits (69), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 164 YICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQY 223
Y+C CGK FK ++L+ H+ SH E C GC K F+ L+ H + H
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYE--CPHEGCDKRFSLPSRLKRHEKV-HAG 58
Query: 224 IPCE 227
PC+
Sbjct: 59 YPCK 62
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFAFKHVRDNHEK 307
C F+ C +F ++ L+ H + H + P+ C GC RF+ HEK
Sbjct: 4 CHFENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
>pdb|1UN6|B Chain B, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|C Chain C, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|1UN6|D Chain D, The Crystal Structure Of A Zinc Finger - Rna Complex
Reveals Two Modes Of Molecular Recognition
pdb|2HGH|A Chain A, Transcription Factor Iiia Zinc Fingers 4-6 Bound To 5s
Rrna 55mer (Nmr Structure)
Length = 87
Score = 35.8 bits (81), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 24/52 (46%)
Query: 70 EECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
E CG +FKK LK H SH + P+ C + C + L RH H G
Sbjct: 7 ENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 26/68 (38%), Gaps = 10/68 (14%)
Query: 123 LFKCPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLR 182
++ C ENC + F +K H Q Y C GC K F S+L+
Sbjct: 1 MYVCHFENCGKAFKKHNQLKVH----------QFSHTQQLPYECPHEGCDKRFSLPSRLK 50
Query: 183 QHEDSHVN 190
+HE H
Sbjct: 51 RHEKVHAG 58
Score = 31.2 bits (69), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 164 YICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQY 223
Y+C CGK FK ++L+ H+ SH E C GC K F+ L+ H + H
Sbjct: 2 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYE--CPHEGCDKRFSLPSRLKRHEKV-HAG 58
Query: 224 IPCE 227
PC+
Sbjct: 59 YPCK 62
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 25/52 (48%), Gaps = 1/52 (1%)
Query: 256 CQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFAFKHVRDNHEK 307
C F+ C +F ++ L+ H + H + P+ C GC RF+ HEK
Sbjct: 4 CHFENCGKAFKKHNQLKVH-QFSHTQQLPYECPHEGCDKRFSLPSRLKRHEK 54
>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 = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 2/57 (3%)
Query: 63 GVQCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRH 119
G C CG F+ YL H+ +H E+P++C + C + +K L HL RH
Sbjct: 1 GSSSRECSYCGKFFRSNYYLNIHLRTHTGEKPYKC--EFCEYAAAQKTSLRYHLERH 55
>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 = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 57 GDGETKGVQCNTCEECGASFKKPAYLKQHMLSHLLERP 94
G + GV+ C ECG +F+ +YL HM +H E+P
Sbjct: 1 GSSGSSGVKPYGCSECGKAFRSKSYLIIHMRTHTGEKP 38
>pdb|1VA1|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna Binding
Domain (Zinc Finger 1)
Length = 37
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 19/34 (55%)
Query: 157 DSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVN 190
D G +KQ+IC GCGKV+ S LR H H
Sbjct: 2 DPGKKKQHICHIQGCGKVYGKTSHLRAHLRWHTG 35
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 21/49 (42%)
Query: 251 SERIKCQFKGCLLSFSTNSNLRQHVKAVHYEIKPFACSFFGCGMRFAFK 299
S + C F GC FS L H K H K F+C CG F FK
Sbjct: 5 SSGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFK 53
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 37/71 (52%), Gaps = 13/71 (18%)
Query: 198 CSEPGCMKYFTNKQCLEAHIRSCHQYI-------PCEICG-SMQLKKNIKRHVRTHEARD 249
C PGC + F+N+Q L H + +Q+I P CG S KK++K H++ H D
Sbjct: 10 CDFPGCGRIFSNRQYLNHHKK--YQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHS--D 65
Query: 250 LSERIKCQFKG 260
+ I C+F G
Sbjct: 66 TRDYI-CEFSG 75
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 166 CQEIGCGKVFKYASKLRQHED-SHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIR 218
C GCG++F L H+ H++ S C EP C K F K+ L+ H++
Sbjct: 10 CDFPGCGRIFSNRQYLNHHKKYQHIHQKSFS--CPEPACGKSFNFKKHLKEHMK 61
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 27/64 (42%), Gaps = 2/64 (3%)
Query: 57 GDGETKGVQCNTCEECGASFKKPAYLKQHM-LSHLLERPFRCSVDDCHASYRRKDHLTRH 115
G + G+ C+ CG F YL H H+ ++ F C C S+ K HL H
Sbjct: 1 GSSGSSGMPCDF-PGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEH 59
Query: 116 LLRH 119
+ H
Sbjct: 60 MKLH 63
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 26/65 (40%), Gaps = 9/65 (13%)
Query: 126 CPIENCNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHE 185
C C R F+ + + H K H QK + C E CGK F + L++H
Sbjct: 10 CDFPGCGRIFSNRQYLNHHKKYQHIH---------QKSFSCPEPACGKSFNFKKHLKEHM 60
Query: 186 DSHVN 190
H +
Sbjct: 61 KLHSD 65
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRH 115
C ECG +F + + L QH H E+P++C +C ++ + L H
Sbjct: 17 CVECGKAFSRSSILVQHQRVHTGEKPYKC--LECGKAFSQNSGLINH 61
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQGK 122
C CG +++ + L +H +HL RP C +C +R + + RHL HQ K
Sbjct: 7 CNFCGKTYRDASGLSRHRRAHLGYRPRSCP--ECGKCFRDQSEVNRHLKVHQNK 58
>pdb|1U86|A Chain A, 321-Tw-322 Insertion Mutant Of The Third Zinc Finger Of
Bklf
Length = 35
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 93 RPFRCSVDDCHASYRRKDHLTRHLLRHQ 120
+PF+C+ DC S+ R DHL H RH
Sbjct: 6 KPFQCTWPDCDRSFSRSDHLALHRKRHM 33
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide Reveals
An Extension To The Rules For Zinc-FingerDNA RECOGNITION
Length = 66
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 7/61 (11%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLL---RHQGKLFKCPIENCNREFTIQGNMKRHVKEL 148
E +RC V C Y + RH + + K++ CP C +EFT + NM HVK +
Sbjct: 8 EHTYRCKV--CSRVYTHISNFCRHYVTSHKRNVKVYPCPF--CFKEFTRKDNMTAHVKII 63
Query: 149 H 149
H
Sbjct: 64 H 64
>pdb|2ENT|A Chain A, Solution Structure Of The Second C2h2-Type Zinc Finger
Domain From Human Krueppel-Like Factor 15
Length = 48
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%)
Query: 283 KPFACSFFGCGMRFAFKHVRDNHEKSGHHVYSSG 316
KPFAC++ GCG RF+ H +S V SG
Sbjct: 11 KPFACTWPGCGWRFSRSDELSRHRRSHSGVKPSG 44
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQG 121
E+PF C+ C + R D L+RH H G
Sbjct: 10 EKPFACTWPGCGWRFSRSDELSRHRRSHSG 39
>pdb|2EPP|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 278
Length = 66
Score = 31.2 bits (69), Expect = 0.90, Method: Composition-based stats.
Identities = 12/18 (66%), Positives = 14/18 (77%)
Query: 171 CGKVFKYASKLRQHEDSH 188
CGKVF A++LRQHE H
Sbjct: 19 CGKVFTDANRLRQHEAQH 36
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 30/67 (44%), Gaps = 9/67 (13%)
Query: 57 GDGETKGV-------QCNTCEECGASFKKPAYLKQHMLSHLLERPFRCSVDDCHASYRRK 109
GDGE GV +C+ C CG SF ++H+ + F C C A++
Sbjct: 12 GDGEGAGVLGLSASAECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKY--CPATFYSS 69
Query: 110 DHLTRHL 116
LTRH+
Sbjct: 70 PGLTRHI 76
>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 = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 14/82 (17%)
Query: 16 RPKSRDVRRYYCDYCGICRSKKSLILSHIASHHKEDEERVDGDGETKGVQCNTCEECGAS 75
R S+ + + C +CG +K +L H +H E TC+ C +
Sbjct: 9 RLPSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERP--------------YTCDICHKA 54
Query: 76 FKKPAYLKQHMLSHLLERPFRC 97
F++ +L+ H H E+PF+C
Sbjct: 55 FRRQDHLRDHRYIHSKEKPFKC 76
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 88 SHLLERPFRCSVDDCHASYRRKDHLTRHLLRHQGKLFKCP 127
S E+PFRC D C S+R++ L H + H G+ P
Sbjct: 6 SGTAEKPFRC--DTCDKSFRQRSALNSHRMIHTGEKPSGP 43
>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 = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 155 STDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVN 190
S+ S QK Y+C E CGK F S+L HE H
Sbjct: 2 SSGSSGQKPYVCNE--CGKAFGLKSQLIIHERIHTG 35
>pdb|1LAR|A Chain A, Crystal Structure Of The Tandem Phosphatase Domains Of
Rptp Lar
pdb|1LAR|B Chain B, Crystal Structure Of The Tandem Phosphatase Domains Of
Rptp Lar
Length = 575
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 181 LRQHEDSHVNLDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIPCEICGSMQLKKNIKR 240
+ Q ED +V + EA C + L AHI+ Q P E +M+L+ +
Sbjct: 258 MVQTEDQYVFIH--EALLEAATCGHTEVPARNLYAHIQKLGQVPPGESVTAMELEFKLLA 315
Query: 241 HVRTHEARDLSERIKC-QFKGCLLSF 265
+ H +R +S + C +FK L++
Sbjct: 316 SSKAHTSRFISANLPCNKFKNRLVNI 341
>pdb|2YTT|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
204- 236) Of Human Zinc Finger Protein 473
Length = 46
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
C ECG SF L QH ++H E+P
Sbjct: 15 CSECGKSFSGSYRLTQHWITHTREKP 40
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%), Gaps = 1/32 (3%)
Query: 69 CEECGASFKKPAYLKQHMLS-HLLERPFRCSV 99
C+ CG F +P +L H+ H ERP +C V
Sbjct: 15 CQSCGKGFSRPDHLNGHIKQVHTSERPHKCQV 46
>pdb|2IWI|A Chain A, Crystal Structure Of The Human Pim2 In Complex With A
Ruthenium Organometallic Ligand Ru1
pdb|2IWI|B Chain B, Crystal Structure Of The Human Pim2 In Complex With A
Ruthenium Organometallic Ligand Ru1
Length = 312
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/101 (19%), Positives = 41/101 (40%), Gaps = 6/101 (5%)
Query: 139 GNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLDSVEAFC 198
G + ++ H G D D+ I GC K+ + S H++ + + D +
Sbjct: 146 GQVVAAIQHCHSRGVVHRDIKDENILIDLRRGCAKLIDFGSGALLHDEPYTDFDGTRVY- 204
Query: 199 SEPGCMKYFTNKQ--CLEAHIRSCHQYIPCEICGSMQLKKN 237
S P ++ + Q L A + S + +CG + +++
Sbjct: 205 SPP---EWISRHQYHALPATVWSLGILLYDMVCGDIPFERD 242
>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 = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 155 STDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNLD 192
S+ S +K Y+C + CGK F + S+L H+ H +
Sbjct: 2 SSGSSGEKPYVCSD--CGKAFTFKSQLIVHQGIHTGVS 37
>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 = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 16/95 (16%)
Query: 131 CNREFTIQGNMKRHVKELHHEGTTSTDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVN 190
C R + +++RH +H +K+Y C+ C KVF A +HE H
Sbjct: 28 CKRSYVCLTSLRRHF-NIH---------SWEKKYPCRY--CEKVFPLAEYRTKHEIHHTG 75
Query: 191 LDSVEAFCSEPGCMKYFTNKQCLEAHIRSCHQYIP 225
+ C K F N Q + +HI+S H P
Sbjct: 76 ERRYQCL----ACGKSFINYQFMSSHIKSVHSQDP 106
>pdb|2EMC|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
641- 673) Of Human Zinc Finger Protein 473
Length = 46
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
C ECG +F A+L +H L H E P
Sbjct: 15 CNECGKTFSHSAHLSKHQLIHAGENP 40
>pdb|2EQ0|A Chain A, Solution Structure Of The 8th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 347
Length = 46
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%), Gaps = 2/36 (5%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQGKLFKCP 127
E+P++C +C +RR HL RH L H G+ P
Sbjct: 10 EKPYKC--HECGKVFRRNSHLARHQLIHTGEKPSGP 43
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
C ECG F++ ++L +H L H E+P
Sbjct: 15 CHECGKVFRRNSHLARHQLIHTGEKP 40
>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 = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
C ECG +F +YL HM +H E+P
Sbjct: 15 CSECGKAFSSKSYLIIHMRTHSGEKP 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 = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 2/36 (5%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQGKLFKCP 127
E+PF+C +C SY ++ HLT+H H G+ P
Sbjct: 10 EKPFKCG--ECGKSYNQRVHLTQHQRVHTGEKPSGP 43
>pdb|2EMM|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
544- 576) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 28.9 bits (63), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
C ECG SF + A+L QH H E+P
Sbjct: 15 CNECGKSFIQSAHLIQHQRIHTGEKP 40
>pdb|2EM1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
637- 667) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 2/37 (5%)
Query: 155 STDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVNL 191
S+ S +K Y C E CGK F + S+L H+ H +
Sbjct: 2 SSGSSGEKPYSCNE--CGKAFTFKSQLIVHKGVHTGV 36
>pdb|2EPR|A Chain A, Solution Structure Of The Secound Zinc Finger Domain Of
Zinc Finger Protein 278
Length = 48
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 68 TCEECGASFKKPAYLKQHMLSHLLERPF 95
CE CG F+ +L +H LSH E+P+
Sbjct: 14 ACEICGKIFRDVYHLNRHKLSHSGEKPY 41
>pdb|2EN2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
598- 626) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 16/26 (61%)
Query: 69 CEECGASFKKPAYLKQHMLSHLLERP 94
CE CGA F + A+L+ H+L H P
Sbjct: 14 CETCGARFVQVAHLRAHVLIHTGSGP 39
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 45
Score = 28.5 bits (62), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 92 ERPFRCSVDDCHASYRRKDHLTRHLLRHQGKLFK 125
E+P+ C V C ++RKD ++ H+ H G + K
Sbjct: 8 EKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGK 39
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 155 STDSGDQKQYICQEIGCGKVFKYASKLRQHEDSHVN 190
S+ S +K Y+CQE CGK F +S L H H
Sbjct: 2 SSGSSGEKPYVCQE--CGKAFTQSSCLSIHRRVHTG 35
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
0.322 0.135 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,920,101
Number of Sequences: 62578
Number of extensions: 439241
Number of successful extensions: 1489
Number of sequences better than 100.0: 108
Number of HSP's better than 100.0 without gapping: 70
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1080
Number of HSP's gapped (non-prelim): 327
length of query: 362
length of database: 14,973,337
effective HSP length: 100
effective length of query: 262
effective length of database: 8,715,537
effective search space: 2283470694
effective search space used: 2283470694
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: 52 (24.6 bits)