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= psy7466
(338 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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 45/153 (29%), Positives = 71/153 (46%), Gaps = 26/153 (16%)
Query: 132 EMERISQGLE-YQCSVCSQVFIEKKNLSKH--------FFKC--LMKFTQKKKNLSKHFF 180
E +R G + Y+C C + F +KK+L++H +KC K ++ NL H
Sbjct: 39 EHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAH-- 96
Query: 181 KCLMKFTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLL 240
+ T +G + C C + FS L L H R H G E+PY+C +C F + L
Sbjct: 97 ----QRTHTGEKPYACPECGKSFSQLAHLRAH-QRTHTG--EKPYKCPECGKSFSREDNL 149
Query: 241 ----KAHVLEKHEVFQCTQCEKYYRSQSTLDVH 269
+ H EK ++C +C K + + L+VH
Sbjct: 150 HTHQRTHTGEK--PYKCPECGKSFSRRDALNVH 180
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 33/64 (51%), Gaps = 6/64 (9%)
Query: 215 RRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEKH----EVFQCTQCEKYYRSQSTLDVHV 270
R H G E+PY+C C F Q +K H+L+KH F C C+ +S L VH+
Sbjct: 8 RTHSG--EKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARKSDLGVHL 65
Query: 271 SKKH 274
K+H
Sbjct: 66 RKQH 69
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 30/62 (48%), Gaps = 1/62 (1%)
Query: 187 TQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLE 246
T SG ++C IC F+ +++ HI ++H + + C C + S L H+ +
Sbjct: 9 THSGEKPYECYICHARFTQSGTMKMHILQKHTENVAK-FHCPHCDTVIARKSDLGVHLRK 67
Query: 247 KH 248
+H
Sbjct: 68 QH 69
>pdb|1MEY|C Chain C, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|F Chain F, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
pdb|1MEY|G Chain G, Crystal Structure Of A Designed Zinc Finger Protein Bound
To Dna
Length = 87
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 40/102 (39%), Gaps = 27/102 (26%)
Query: 142 YQCSVCSQVFIEKKNLSKHFFKCLMKFTQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFE 201
Y+C C + F + NL KH + T +G +KC C +
Sbjct: 5 YKCPECGKSFSQSSNLQKH------------------------QRTHTGEKPYKCPECGK 40
Query: 202 YFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH 243
FS L+ H R H G E+PY+C +C F + L H
Sbjct: 41 SFSQSSDLQKH-QRTHTG--EKPYKCPECGKSFSRSDHLSRH 79
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 222 EEPYQCSQCSLCFDQGSLL----KAHVLEKHEVFQCTQCEKYYRSQSTLDVH 269
E+PY+C +C F Q S L + H EK ++C +C K + S L H
Sbjct: 2 EKPYKCPECGKSFSQSSNLQKHQRTHTGEK--PYKCPECGKSFSQSSDLQKH 51
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 195 KCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH--VLEKHEVFQ 252
KC +C + FS + L+TH+ R H G+ +PY+C C S L H + F+
Sbjct: 10 KCEVCGKCFSRKDKLKTHM-RCHTGV--KPYKCKTCDYAAADSSSLNKHLRIHSDERPFK 66
Query: 253 CTQCEKYYRSQSTLDVHVSKKHPAGTG 279
C C R+ S L VH+ + H +G
Sbjct: 67 CQICPYASRNSSQLTVHL-RSHTGDSG 92
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 37.7 bits (86), Expect = 0.008, Method: Composition-based stats.
Identities = 21/61 (34%), Positives = 29/61 (47%), Gaps = 8/61 (13%)
Query: 215 RRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEKHE------VFQCTQCEKYYRSQSTLDV 268
R H G E+PY CS C F Q LL H H+ F C++C K + ++T+
Sbjct: 8 RTHTG--EKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMAR 65
Query: 269 H 269
H
Sbjct: 66 H 66
Score = 28.5 bits (62), Expect = 5.0, Method: Composition-based stats.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 237 GSLLKAHVLEKHEVFQCTQCEKYYRSQSTLDVHVSKKH 274
GS + H EK + C+ C+K +R + LD+H + H
Sbjct: 4 GSSGRTHTGEKP--YACSHCDKTFRQKQLLDMHFKRYH 39
>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 = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 82
>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 = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 33/71 (46%), Gaps = 9/71 (12%)
Query: 174 NLSKHFFKCLMKFTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLC 233
NL++H +G+ F+C IC FS + L THI R H G E+P+ C C
Sbjct: 21 NLTRHIR------IHTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRK 71
Query: 234 FDQGSLLKAHV 244
F + K H
Sbjct: 72 FARSDERKRHT 82
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 36.2 bits (82), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 23/106 (21%), Positives = 40/106 (37%), Gaps = 25/106 (23%)
Query: 144 CSVCSQVFIEKKNLSKHFFKCLMKFTQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFEYF 203
C +C ++F + +L++H K + SG + C +C F
Sbjct: 10 CEICGKIFRDVYHLNRH------------------------KLSHSGEKPYSCPVCGLRF 45
Query: 204 SLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEKHE 249
+ + H+ R H G +PY C C F + L H+ + H
Sbjct: 46 KRKDRMSYHV-RSHDGSVGKPYICQSCGKGFSRPDHLNGHIKQVHS 90
>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 = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 82
>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 = 36.2 bits (82), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 82
>pdb|1P47|A Chain A, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
pdb|1P47|B Chain B, Crystal Structure Of Tandem Zif268 Molecules Complexed To
Dna
Length = 87
Score = 35.8 bits (81), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 28 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 81
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 35.8 bits (81), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 82
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G+ F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 29 HTGQKPFQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRHT 82
>pdb|1G2F|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
pdb|1G2F|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(Tatazf;clone #6)
Length = 90
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 25/68 (36%), Positives = 32/68 (47%), Gaps = 10/68 (14%)
Query: 164 CLMKFTQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEE 223
C +F+QK NL H +G+ F+C IC FS SL HI R H G E+
Sbjct: 12 CDRRFSQKT-NLDTHIR------IHTGQKPFQCRICMRNFSQQASLNAHI-RTHTG--EK 61
Query: 224 PYQCSQCS 231
P+ C C
Sbjct: 62 PFACDICG 69
Score = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 194 FKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEK--HE 249
+ C + C FS +L+THI R H G ++P+QC C F Q + L AH+ +
Sbjct: 5 YACPVESCDRRFSQKTNLDTHI-RIHTG--QKPFQCRICMRNFSQQASLNAHIRTHTGEK 61
Query: 250 VFQCTQCEKYYRSQSTLDVHV 270
F C C + + + T H
Sbjct: 62 PFACDICGRKFATLHTRTRHT 82
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 222 EEPYQCS--QCSLCFDQGSLLKAHV--LEKHEVFQCTQCEKYYRSQSTLDVHV 270
E PY C C F Q + L H+ + FQC C + + Q++L+ H+
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHI 54
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 34/83 (40%), Gaps = 18/83 (21%)
Query: 142 YQCSV--CSQVFIEKKNLSKHF--------FKC--LMKFTQKKKNLSKHFFKCLMKFTQS 189
Y C V C + F +K NL H F+C M+ ++ +L+ H T +
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIR------THT 58
Query: 190 GRSSFKCAICFEYFSLLESLETH 212
G F C IC F+ L + H
Sbjct: 59 GEKPFACDICGRKFATLHTRTRH 81
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 43/96 (44%), Gaps = 12/96 (12%)
Query: 188 QSGRSSFKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQ--CSLCFDQGS----- 238
+G KC C + +S LE+L+TH+ R H G E+PY C CS F S
Sbjct: 62 HTGEKPHKCTFEGCRKSYSRLENLKTHL-RSHTG--EKPYMCEHEGCSKAFSNASDRAKH 118
Query: 239 LLKAHVLEKHEVFQCTQCEKYYRSQSTLDVHVSKKH 274
+ H EK V + C K Y S+L HV H
Sbjct: 119 QNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTVH 154
>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 = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 31/68 (45%), Gaps = 10/68 (14%)
Query: 164 CLMKFTQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEE 223
C +F+QK NL H +G+ F+C IC FS L HI R H G E+
Sbjct: 12 CDRRFSQKT-NLDTHIR------IHTGQKPFQCRICMRNFSQHTGLNQHI-RTHTG--EK 61
Query: 224 PYQCSQCS 231
P+ C C
Sbjct: 62 PFACDICG 69
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 38/81 (46%), Gaps = 7/81 (8%)
Query: 194 FKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEK--HE 249
+ C + C FS +L+THI R H G ++P+QC C F Q + L H+ +
Sbjct: 5 YACPVESCDRRFSQKTNLDTHI-RIHTG--QKPFQCRICMRNFSQHTGLNQHIRTHTGEK 61
Query: 250 VFQCTQCEKYYRSQSTLDVHV 270
F C C + + + T D H
Sbjct: 62 PFACDICGRKFATLHTRDRHT 82
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 33/81 (40%), Gaps = 14/81 (17%)
Query: 142 YQCSV--CSQVFIEKKNLSKHF--------FKCLMKFTQKKKNLSKHFFKCLMKFTQSGR 191
Y C V C + F +K NL H F+C + +N S+H T +G
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQKPFQCRICM----RNFSQHTGLNQHIRTHTGE 60
Query: 192 SSFKCAICFEYFSLLESLETH 212
F C IC F+ L + + H
Sbjct: 61 KPFACDICGRKFATLHTRDRH 81
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/58 (37%), Positives = 28/58 (48%), Gaps = 3/58 (5%)
Query: 186 FTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH 243
+ Q R +KC C + FS L H R H G E+PY+C +C F Q S L H
Sbjct: 11 WQQRERRRYKCDECGKSFSHSSDLSKH-RRTHTG--EKPYKCDECGKAFIQRSHLIGH 65
>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 = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 25/50 (50%), Gaps = 3/50 (6%)
Query: 194 FKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH 243
F+C IC FS + L THI R H G E+P+ C C F + K H
Sbjct: 4 FQCRICMRNFSRSDHLTTHI-RTHTG--EKPFACDICGRKFARSDERKRH 50
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 36/86 (41%), Gaps = 6/86 (6%)
Query: 193 SFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVL--EKHEV 250
SF C IC + F +L TH+ I PY C C F Q S +K H +
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLL---IHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKP 57
Query: 251 FQCTQCEKYYRSQSTLDVHVSKKHPA 276
+C C K + S L H S+KH
Sbjct: 58 HKCQVCGKAFSQSSNLITH-SRKHTG 82
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 19/90 (21%)
Query: 141 EYQCSVCSQVFIEKKNLSKHFF-----------KCLMKFTQKKKNLSKHFFKCLMKFTQS 189
+ C +C + F LS H C +F QK ++ KH F +
Sbjct: 1 SFDCKICGKSFKRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKS-DMKKH------TFIHT 53
Query: 190 GRSSFKCAICFEYFSLLESLETHITRRHIG 219
G KC +C + FS +L TH +R+H G
Sbjct: 54 GEKPHKCQVCGKAFSQSSNLITH-SRKHTG 82
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 32.0 bits (71), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 35/78 (44%), Gaps = 5/78 (6%)
Query: 194 FKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH--VLEKHEVF 251
F C C +F+ +L H R H E PY C C F + L+ H + K + F
Sbjct: 18 FICKFCGRHFTKSYNLLIH-ERTHTD--ERPYTCDICHKAFRRQDHLRDHRYIHSKEKPF 74
Query: 252 QCTQCEKYYRSQSTLDVH 269
+C +C K + TL VH
Sbjct: 75 KCQECGKGFCQSRTLAVH 92
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 3/57 (5%)
Query: 187 TQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAH 243
T + + C IC + F + L H R+I E+P++C +C F Q L H
Sbjct: 39 THTDERPYTCDICHKAFRRQDHLRDH---RYIHSKEKPFKCQECGKGFCQSRTLAVH 92
>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 = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 4/60 (6%)
Query: 190 GRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEKHE 249
G SS +C+ C ++F L H+ R H G E+PY+C C Q + L+ H LE+H
Sbjct: 1 GSSSRECSYCGKFFRSNYYLNIHL-RTHTG--EKPYKCEFCEYAAAQKTSLRYH-LERHH 56
>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 = 31.6 bits (70), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 3/110 (2%)
Query: 169 TQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFEYFSLLESLETHITRRHIGICEEPYQCS 228
T KK LSK++ K + +G F+C C + + E+L H R + E+ + CS
Sbjct: 12 TCHKKFLSKYYLK-VHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCS 70
Query: 229 QCSLCFDQGSLLKAHVLEK--HEVFQCTQCEKYYRSQSTLDVHVSKKHPA 276
C F + L+ H++ ++C+ C + + + L H+ K H
Sbjct: 71 VCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSG 120
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%)
Query: 109 KDEILLMKALDEEMFKMDEENNKEMERISQGLEYQCSVCSQVFIEKKNLSKHFFK 163
+ E + ++ +E F+ E M + + Y+CS CSQ F++KK+L H K
Sbjct: 62 RSEQVFTCSVCQETFRRRMELRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIK 116
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 39/92 (42%), Gaps = 21/92 (22%)
Query: 142 YQCSVCSQVFIEKKNLSKHFFKCLMKFTQKKKNLSKHFFKC--------------LMKFT 187
++C C + + K+NL +H + M N S+ F C L +
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCM-------NRSEQVFTCSVCQETFRRRMELRLHMVS 88
Query: 188 QSGRSSFKCAICFEYFSLLESLETHITRRHIG 219
+G +KC+ C + F + L++H+ + H G
Sbjct: 89 HTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSG 120
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 3/56 (5%)
Query: 193 SFKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHVLEKH 248
SF C +C F+ E L+ H R H E+PY C C+ F + LL H + H
Sbjct: 2 SFVCEVCTRAFARQEHLKRHY-RSHTN--EKPYPCGLCNRAFTRRDLLIRHAQKIH 54
>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 = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 5/59 (8%)
Query: 188 QSGRSSFKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+G ++C C FS + L+ H RRH G+ +P+QC C F + LK H
Sbjct: 31 HTGEKPYQCDFKDCERRFSRSDQLKRH-QRRHTGV--KPFQCKTCQRKFSRSDHLKTHT 86
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 194 FKCAICFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
+KC C F +L +H T H G E+PY+C+ C F++ + LK H
Sbjct: 18 YKCDRCQASFRYKGNLASHKTV-HTG--EKPYRCNICGAQFNRPANLKTHT 65
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 29/78 (37%), Gaps = 25/78 (32%)
Query: 142 YQCSVCSQVFIEKKNLSKHFFKCLMKFTQKKKNLSKHFFKCLMKFTQSGRSSFKCAICFE 201
Y+C C F K NL+ H K +G ++C IC
Sbjct: 18 YKCDRCQASFRYKGNLASH------------------------KTVHTGEKPYRCNICGA 53
Query: 202 YFSLLESLETHITRRHIG 219
F+ +L+TH TR H G
Sbjct: 54 QFNRPANLKTH-TRIHSG 70
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 222 EEPYQCSQCSLCFDQGSLLKAH--VLEKHEVFQCTQCEKYYRSQSTLDVH 269
E+PY C +C F + S+L H V + ++C +C K + S L H
Sbjct: 12 EKPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINH 61
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 197 AICFEYFSLLESLETHITRRHIGICEEPYQCS--QCSLCFDQGSLLKAHVLEK--HEVFQ 252
A C + ++ L+ H+ R H G E+PY C C F + L H + H FQ
Sbjct: 12 AGCGKTYTKSSHLKAHL-RTHTG--EKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 68
Query: 253 CTQCEKYYRSQSTLDVHVSK 272
C +C++ + L +H+ +
Sbjct: 69 CQKCDRAFSRSDHLALHMKR 88
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 22/80 (27%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 197 AICFEYFSLLESLETHITRRHIGICEEPYQCS--QCSLCFDQGSLLKAHVLEK--HEVFQ 252
A C + ++ L+ H+ R H G E+PY C C F + L H + H FQ
Sbjct: 11 AGCGKTYTKSSHLKAHL-RTHTG--EKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 67
Query: 253 CTQCEKYYRSQSTLDVHVSK 272
C +C++ + L +H+ +
Sbjct: 68 CQKCDRAFSRSDHLALHMKR 87
>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
887- 919) Of Human Zinc Finger Protein 268
Length = 46
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 222 EEPYQCSQCSLCFDQGSLLKAH 243
E+PY C++C F Q S+L AH
Sbjct: 10 EKPYGCNECGKTFSQKSILSAH 31
>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 = 28.9 bits (63), Expect = 4.6, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 2/56 (3%)
Query: 223 EPYQCSQCSLCFDQGSLLKAHV--LEKHEVFQCTQCEKYYRSQSTLDVHVSKKHPA 276
E + C C F + H+ L +VF C C + S L H++K HP+
Sbjct: 27 ECHLCPVCGESFASKGAQERHLRLLHAAQVFPCKYCPATFYSSPGLTRHINKCHPS 82
>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 = 5.2, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 16/24 (66%)
Query: 222 EEPYQCSQCSLCFDQGSLLKAHVL 245
E+PY+C C F Q + L+AHVL
Sbjct: 9 EKPYKCETCGARFVQVAHLRAHVL 32
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 5/60 (8%)
Query: 187 TQSGRSSFKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQCSLCFDQGSLLKAHV 244
T +G +KC C F+ + L H R+H G +P+QC C+ F + L H+
Sbjct: 39 THTGEKPYKCTWEGCDWRFARSDELTRHY-RKHTGA--KPFQCGVCNRSFSRSDHLALHM 95
>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 = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 2/51 (3%)
Query: 225 YQCSQCSLCFDQGSLLKAHVLEKHEV--FQCTQCEKYYRSQSTLDVHVSKK 273
Y C +C + + S+LK H+ +V + CT C ++++ L H+ K
Sbjct: 2 YICEECGIRXKKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSK 52
>pdb|1F2I|G Chain G, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|H Chain H, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|I Chain I, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|J Chain J, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|K Chain K, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
pdb|1F2I|L Chain L, Cocrystal Structure Of Selected Zinc Finger Dimer Bound To
Dna
Length = 73
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 30/72 (41%), Gaps = 5/72 (6%)
Query: 175 LSKHFFKCLMKFTQSGRSSFKCAI--CFEYFSLLESLETHITRRHIGICEEPYQCSQCSL 232
+ H L+ + + C + C FS + L HI R H G ++P+QC C
Sbjct: 1 MEPHPMNNLLNYVVPKMRPYACPVESCDRRFSRSDELTRHI-RIHTG--QKPFQCRICMR 57
Query: 233 CFDQGSLLKAHV 244
F + L H+
Sbjct: 58 NFSRSDHLTTHI 69
>pdb|2EM3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
640- 672) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 142 YQCSVCSQVFIEKKNLSKH 160
Y+C VCS+ F +K +L++H
Sbjct: 13 YECKVCSKAFTQKAHLAQH 31
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
0.319 0.132 0.383
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,360,919
Number of Sequences: 62578
Number of extensions: 317566
Number of successful extensions: 1163
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 1001
Number of HSP's gapped (non-prelim): 164
length of query: 338
length of database: 14,973,337
effective HSP length: 99
effective length of query: 239
effective length of database: 8,778,115
effective search space: 2097969485
effective search space used: 2097969485
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)