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= 020075
(331 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2I13|A Chain A, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
pdb|2I13|B Chain B, Aart, A Six Finger Zinc Finger Designed To Recognize Ann
Triplets
Length = 190
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 50/155 (32%), Positives = 68/155 (43%), Gaps = 22/155 (14%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGCN 181
E + C CGK F R +L H R H E KP K G+ FS D
Sbjct: 18 GEKPYACPECGKSFSRSDHLAEHQRTHTGE--------KPYKCPECGKS--FSDKKDLTR 67
Query: 182 RNKKHKKFRALKSVICVKNHFKRSHC---------PKMYSCDKCHKKSFSVVSDLRSHYK 232
+ H + K C K+ +R++ K Y+C +C KSFS ++ LR+H +
Sbjct: 68 HQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPEC-GKSFSQLAHLRAHQR 126
Query: 233 -NCGESRWKC-SCGTSFSRKDKLFGHVALFEGHMP 265
+ GE +KC CG SFSR+D L H G P
Sbjct: 127 THTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKP 161
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 61/144 (42%), Gaps = 32/144 (22%)
Query: 121 LAEHIHFCDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGC 180
E + C CGK F + ANLR H R H E KP ++CP G
Sbjct: 73 TGEKPYKCPECGKSFSQRANLRAHQRTHTGE--------KP-----------YACPECG- 112
Query: 181 NRNKKHKKFRALKSVICVKNHFKRSHCPKMYSCDKCHKKSFSVVSDLRSHYK-NCGESRW 239
++ + ++ H + K Y C +C KSFS +L +H + + GE +
Sbjct: 113 ---------KSFSQLAHLRAHQRTHTGEKPYKCPEC-GKSFSREDNLHTHQRTHTGEKPY 162
Query: 240 KC-SCGTSFSRKDKLFGHVALFEG 262
KC CG SFSR+D L H G
Sbjct: 163 KCPECGKSFSRRDALNVHQRTHTG 186
>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 = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/50 (50%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 209 KMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKC-SCGTSFSRKDKLFGH 256
K Y C +C KSFS SDL+ H + + GE +KC CG SFSR D L H
Sbjct: 31 KPYKCPEC-GKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH 79
Score = 34.7 bits (78), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 3/59 (5%)
Query: 209 KMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKC-SCGTSFSRKDKLFGHVALFEGHMP 265
K Y C +C KSFS S+L+ H + + GE +KC CG SFS+ L H G P
Sbjct: 3 KPYKCPEC-GKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKP 60
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 96 KNPEIGSEHDIESDCEIVEIDAVELLAEHIHFCDICGKGFKRDANLRMHMRAHGDE 151
K PE G SD ++ E + C CGK F R +L H R H ++
Sbjct: 34 KCPECGKSFSQSSD---LQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRTHQNK 86
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 33/59 (55%), Gaps = 3/59 (5%)
Query: 209 KMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKC-SCGTSFSRKDKLFGHVALFEGHMP 265
+ Y CD+C KSFS SDL H + + GE +KC CG +F ++ L GH + G P
Sbjct: 17 RRYKCDEC-GKSFSHSSDLSKHRRTHTGEKPYKCDECGKAFIQRSHLIGHHRVHTGSGP 74
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 3/59 (5%)
Query: 209 KMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKCS-CGTSFSRKDKLFGHVALFEGHMP 265
K Y CD+C + SF +L SH + GE ++C+ CG F+R L H + G P
Sbjct: 16 KPYKCDRC-QASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTRIHSGEKP 73
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 17/30 (56%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C+ICG F R ANL+ H R H E
Sbjct: 42 GEKPYRCNICGAQFNRPANLKTHTRIHSGE 71
>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 = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 47/98 (47%), Gaps = 14/98 (14%)
Query: 174 SCPYDGCNRNKKHKKFRALKSVICVKNHFKRSHCPKMYSCDKCHKKSFSVVSDLRSH-YK 232
+CP+ GC K FR ++ + H +H P+++ C +C K+F S L+ H
Sbjct: 7 ACPHKGCT-----KMFRDNSAM---RKHL-HTHGPRVHVCAEC-GKAFVESSKLKRHQLV 56
Query: 233 NCGESRWKCS---CGTSFSRKDKLFGHVALFEGHMPEV 267
+ GE ++C+ CG FS L HV + G P V
Sbjct: 57 HTGEKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYV 94
Score = 32.3 bits (72), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 35/91 (38%), Gaps = 29/91 (31%)
Query: 125 IHFCDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFS---------- 174
+H C CGK F + L+ H H E KP + + G RFS
Sbjct: 34 VHVCAECGKAFVESSKLKRHQLVHTGE--------KPFQCTFEGCGKRFSLDFNLRTHVR 85
Query: 175 ---------CPYDGCNRNKKHKKFRALKSVI 196
CP+DGC NKK + LKS I
Sbjct: 86 IHTGDRPYVCPFDGC--NKKFAQSTNLKSHI 114
>pdb|2EOZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
809- 841) Of Human Zinc Finger Protein 473
Length = 46
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%), Gaps = 5/37 (13%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKG 164
C++CGK F A+L H+R H T + L+ P G
Sbjct: 15 CNVCGKAFVLSAHLNQHLRVH-----TQETLSGPSSG 46
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 32.0 bits (71), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%), Gaps = 1/37 (2%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAH-GDEFKTPQA 157
E + C+ CGKG+ R NL MH R H G++ P +
Sbjct: 9 VEKPYKCEDCGKGYNRRLNLDMHQRVHMGEKTSGPSS 45
>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 = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 126 HFCDICGKGFKRDANLRMHMRAH 148
H C++CGK F R L+ HMR H
Sbjct: 9 HKCEVCGKCFSRKDKLKTHMRCH 31
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 31.2 bits (69), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 15/28 (53%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDEFKTP 155
C ICGK FKR + L H+ H D P
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYP 31
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAH 148
E H C +CGK F + +NL H R H
Sbjct: 54 GEKPHKCQVCGKAFSQSSNLITHSRKH 80
>pdb|2EM6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
199- 231) Of Human Zinc Finger Protein 224
Length = 46
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + CD+CGK F + ++L+ H R H E
Sbjct: 10 EKCYKCDVCGKEFSQSSHLQTHQRVHTGE 38
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 31.2 bits (69), Expect = 0.83, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 205 SHCPKMYSCDKCHKKSFSVVSDLRSHYKNCGESRWKCS---CGTSFSRKDKLFGHVALFE 261
+H C K + KS + + LR+H GE + C CG F+R D+L H
Sbjct: 6 THTCDYAGCGKTYTKSSHLKAHLRTH---TGEKPYHCDWDGCGWKFARSDELTRHYRKHT 62
Query: 262 GHMP 265
GH P
Sbjct: 63 GHRP 66
Score = 28.1 bits (61), Expect = 8.1, Method: Composition-based stats.
Identities = 28/109 (25%), Positives = 44/109 (40%), Gaps = 30/109 (27%)
Query: 126 HFCDI--CGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGCNRN 183
H CD CGK + + ++L+ H+R H E KP + C +DGC
Sbjct: 7 HTCDYAGCGKTYTKSSHLKAHLRTHTGE--------KP-----------YHCDWDGCGW- 46
Query: 184 KKHKKFRALKSVICVKNHFKRSHCPKMYSCDKCHKKSFSVVSDLRSHYK 232
KF + H+++ + + C KC ++FS L H K
Sbjct: 47 ----KFARSDE---LTRHYRKHTGHRPFQCQKC-DRAFSRSDHLALHMK 87
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 31.2 bits (69), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 11/89 (12%)
Query: 119 ELLAEHIHFCDI--CGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCP 176
+L IH+CD C K + + ++L+ H+R H E KP K + G RF+
Sbjct: 9 DLEKRRIHYCDYPGCTKVYTKSSHLKAHLRTHTGE--------KPYKCTWEGCDWRFARS 60
Query: 177 YDGCNRNKKHKKFRALKSVICVKNHFKRS 205
+ +KH + + +C ++ F RS
Sbjct: 61 DELTRHYRKHTGAKPFQCGVCNRS-FSRS 88
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 31.2 bits (69), Expect = 0.94, Method: Composition-based stats.
Identities = 21/64 (32%), Positives = 29/64 (45%), Gaps = 6/64 (9%)
Query: 205 SHCPKMYSCDKCHKKSFSVVSDLRSHYKNCGESRWKCS---CGTSFSRKDKLFGHVALFE 261
+H C K + KS + + LR+H GE + C CG F+R D+L H
Sbjct: 5 THTCDYAGCGKTYTKSSHLKAHLRTH---TGEKPYHCDWDGCGWKFARSDELTRHYRKHT 61
Query: 262 GHMP 265
GH P
Sbjct: 62 GHRP 65
Score = 27.7 bits (60), Expect = 9.4, Method: Composition-based stats.
Identities = 28/109 (25%), Positives = 44/109 (40%), Gaps = 30/109 (27%)
Query: 126 HFCDI--CGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGCNRN 183
H CD CGK + + ++L+ H+R H E KP + C +DGC
Sbjct: 6 HTCDYAGCGKTYTKSSHLKAHLRTHTGE--------KP-----------YHCDWDGCGW- 45
Query: 184 KKHKKFRALKSVICVKNHFKRSHCPKMYSCDKCHKKSFSVVSDLRSHYK 232
KF + H+++ + + C KC ++FS L H K
Sbjct: 46 ----KFARSDE---LTRHYRKHTGHRPFQCQKC-DRAFSRSDHLALHMK 86
>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 = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAHGDEF 152
+E + C +C + F+R LR+HM +H E
Sbjct: 63 SEQVFTCSVCQETFRRRMELRLHMVSHTGEM 93
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 23/52 (44%), Gaps = 19/52 (36%)
Query: 131 CGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGCNR 182
CGK F R NL++H R H E KP F C ++GC+R
Sbjct: 98 CGKIFARSENLKIHKRTHTGE--------KP-----------FKCEFEGCDR 130
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 15/29 (51%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C CGK F + ANL H R H E
Sbjct: 10 EKPYRCGECGKAFAQKANLTQHQRIHTGE 38
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDEFKTPQAL 158
C++C + F R +L+ H R+H +E P L
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNEKPYPCGL 35
>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 = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C CG+ F + NL +H R H DE
Sbjct: 20 CKFCGRHFTKSYNLLIHERTHTDE 43
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
CDIC K F+R +LR H H E
Sbjct: 48 CDICHKAFRRQDHLRDHRYIHSKE 71
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 12/89 (13%)
Query: 166 VSGRKTRFSCPYDGCNRNKKHKKFRALKSVICVKNHFKRSHCPKMYSC--DKCHKKSFSV 223
+ G + F C + GC+R + R K+ + H +R K + C + C +KS+S
Sbjct: 28 IHGERKEFVCHWGGCSR-----ELRPFKAQYMLVVHMRRHTGEKPHKCTFEGC-RKSYSR 81
Query: 224 VSDLRSHYK-NCGESRWKC---SCGTSFS 248
+ +L++H + + GE + C C +FS
Sbjct: 82 LENLKTHLRSHTGEKPYMCEHEGCSKAFS 110
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C++C + F R +L+ H R+H +E
Sbjct: 5 CEVCTRAFARQEHLKRHYRSHTNE 28
>pdb|2EM8|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
423- 455) Of Human Zinc Finger Protein 224
Length = 46
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 5/42 (11%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKG 164
E + C CGKG+KR +L H R H T + L+ P G
Sbjct: 10 EKPYKCVECGKGYKRRLDLDFHQRVH-----TGEKLSGPSSG 46
>pdb|2EMZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
628- 660) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C+ CGKGF R ++L H+R H E
Sbjct: 15 CNECGKGFGRRSHLAGHLRLHSRE 38
>pdb|2YSP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
507- 539) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C+ CGKG+ NL MH + H E
Sbjct: 10 EKPYKCEKCGKGYNSKFNLDMHQKVHTGE 38
>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 = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 7/61 (11%)
Query: 207 CPKMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKCS-CGTSFSRKDKLFGHVALFEGHM 264
CP + SCD+ FS +DL H + + G+ ++C C +FSR D L H+ G
Sbjct: 7 CP-VESCDR----RFSRSADLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 265 P 265
P
Sbjct: 62 P 62
>pdb|2EN8|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
171- 203) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 20/36 (55%), Gaps = 1/36 (2%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAH-GDEFKTPQA 157
E H CD CGK F + LR+H R H G++ P +
Sbjct: 10 EKSHTCDECGKNFCYISALRIHQRVHMGEKCSGPSS 45
>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 = 4.0, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 209 KMYSCDKC---HKKSFSVVSDLRSHYKNCGESRWKCSCGTSFSRKDKLFGHV 257
K YSC C K+ + +RSH + G+ SCG FSR D L GH+
Sbjct: 34 KPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSRPDHLNGHI 85
>pdb|2ELR|A Chain A, Solution Structure Of The 15th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 125 IHFCDICGKGFKRDANLRMHMRAH 148
H CD+CGK FK L+ H H
Sbjct: 9 THLCDMCGKKFKSKGTLKSHKLLH 32
>pdb|2EMF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
379- 411) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 126 HF-CDICGKGFKRDANLRMHMRAHGDE 151
HF C CGK F R + L MH + H E
Sbjct: 12 HFECTECGKAFTRKSTLSMHQKIHTGE 38
>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 = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 14/29 (48%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + CD CGK F A L H R H E
Sbjct: 10 EKPYVCDYCGKAFGLSAELVRHQRIHTGE 38
>pdb|3DW8|B Chain B, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
Subunit
pdb|3DW8|E Chain E, Structure Of A Protein Phosphatase 2a Holoenzyme With B55
Subunit
Length = 447
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 116 DAVELLAEHIHFCDICGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSC 175
D+V + + +F + + KRD L E P+ + KP K SG++ +
Sbjct: 354 DSVVMTGSYNNFFRMFDRNTKRDITLEA-----SRENNKPRTVLKPRKVCASGKRKKDEI 408
Query: 176 PYDGCNRNKK--HKKFRALKSVICV 198
D + NKK H + +++I V
Sbjct: 409 SVDSLDFNKKILHTAWHPKENIIAV 433
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C++C + F R L+ H R+H +E
Sbjct: 5 CEVCTRAFARQEYLKRHYRSHTNE 28
>pdb|2YTP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
687- 719) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 13/24 (54%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C CGK F R + L MH R H E
Sbjct: 15 CSECGKAFARKSTLIMHQRIHTGE 38
>pdb|2ENH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
556- 588) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 13/24 (54%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
CD+C K F A+L H R H E
Sbjct: 15 CDVCRKAFSHHASLTQHQRVHSGE 38
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 15/24 (62%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C++C + F R L+ H R+H +E
Sbjct: 5 CEVCTRAFARQEALKRHYRSHTNE 28
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 30/60 (50%), Gaps = 5/60 (8%)
Query: 207 CPKMYSCDKCHKKSFSVVSDLRSHYKNCGESRWKCS-CGTSFSRKDKLFGHVALFEGHMP 265
CP + SCD+ +S S+ +R H G+ ++C C +FSR D L H+ G P
Sbjct: 7 CP-VESCDRRFSQSGSLTRHIRIHT---GQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
>pdb|2YTB|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 5 In
Zinc Finger Protein 32
Length = 42
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAH 148
E + CD CGK F + +L +H+R H
Sbjct: 9 EKPYRCDQCGKAFSQKGSLIVHIRVH 34
>pdb|2EP2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
603- 635) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 128 CDICGKGFKRDANLRMHMRAHGDE 151
C ICGK F + + L +H + H E
Sbjct: 15 CSICGKSFTKKSQLHVHQQIHTGE 38
>pdb|2EPY|A Chain A, Solution Structure Of The 10th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 268
Length = 42
Score = 28.1 bits (61), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E +H C+ CGK F + L +H R H E
Sbjct: 7 GEKLHECNNCGKAFSFKSQLIIHQRIHTGE 36
>pdb|2YTQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
775- 807) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C CGK F + L +HMR H E
Sbjct: 10 EKPYGCSECGKAFSSKSYLIIHMRTHSGE 38
>pdb|2EMV|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
859- 889) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 16/29 (55%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C CGK F R++ L +H R H E
Sbjct: 10 EKPYECSECGKAFIRNSQLIVHQRTHSGE 38
>pdb|2JP9|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2JPA|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
pdb|2PRT|A Chain A, Structure Of The Wilms Tumor Suppressor Protein Zinc
Finger Domain Bound To Dna
Length = 119
Score = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 52/130 (40%), Gaps = 32/130 (24%)
Query: 131 CGKGFKRDANLRMHMRAHGDEFKTPQALAKPEKGSVSGRKTRFSCPYDGCNRNKKHKKFR 190
C K + + ++L+MH R H E KP + C + C R
Sbjct: 14 CNKRYFKLSHLQMHSRKHTGE--------KP-----------YQCDFKDCERR------- 47
Query: 191 ALKSVICVKNHFKRSHCPKMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKC---SCGTS 246
+K H +R K + C C +K FS L++H + + GE + C SC
Sbjct: 48 -FSRSDQLKRHQRRHTGVKPFQCKTCQRK-FSRSDHLKTHTRTHTGEKPFSCRWPSCQKK 105
Query: 247 FSRKDKLFGH 256
F+R D+L H
Sbjct: 106 FARSDELVRH 115
>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 = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 126 HFCDICGKGFKRDANLRMHMRAHGDE 151
+ C CGK F+ + L +HMR H E
Sbjct: 11 YGCSECGKAFRSKSYLIIHMRTHTGE 36
>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 = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%), Gaps = 5/60 (8%)
Query: 207 CPKMYSCDKCHKKSFSVVSDLRSHYKNCGESRWKCS-CGTSFSRKDKLFGHVALFEGHMP 265
CP + SCD+ +S + +R H G+ ++C C +FSR D L H+ G P
Sbjct: 7 CP-VESCDRRFSRSAELTRHIRIHT---GQKPFQCRICMRNFSRSDHLTTHIRTHTGEKP 62
>pdb|2EMH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
491- 523) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 123 EHIHFCDICGKGFKRDANLRMHMRAHGDE 151
E + C +CGK F +NL H + H E
Sbjct: 10 ERPYICTVCGKAFTDRSNLIKHQKIHTGE 38
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAH 148
+E FC+ CGK ++ + L H RAH
Sbjct: 1 SERPFFCNFCGKTYRDASGLSRHRRAH 27
>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 = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 31/61 (50%), Gaps = 7/61 (11%)
Query: 207 CPKMYSCDKCHKKSFSVVSDLRSHYK-NCGESRWKCS-CGTSFSRKDKLFGHVALFEGHM 264
CP + SCD+ FS S+L H + + G+ ++C C +FSR D L H+ G
Sbjct: 7 CP-VESCDR----RFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEK 61
Query: 265 P 265
P
Sbjct: 62 P 62
>pdb|2EPT|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 41
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 9/27 (33%), Positives = 16/27 (59%)
Query: 122 AEHIHFCDICGKGFKRDANLRMHMRAH 148
+ ++ C CGK F++ +L +H R H
Sbjct: 7 GQRVYECQECGKSFRQKGSLTLHERIH 33
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
0.320 0.134 0.410
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,460,982
Number of Sequences: 62578
Number of extensions: 293550
Number of successful extensions: 741
Number of sequences better than 100.0: 85
Number of HSP's better than 100.0 without gapping: 59
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 591
Number of HSP's gapped (non-prelim): 162
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)