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= 001000
(1193 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 70.9 bits (172), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 41/125 (32%), Positives = 68/125 (54%), Gaps = 14/125 (11%)
Query: 1079 CDMEGCTMSFGTKQELVLH----------KKNICPVKGCGKKF--FSHKY-LVQHRRVHL 1125
C +GC+ F ++++LV H K+ +C GC ++ F +Y LV H R H
Sbjct: 4 CRWDGCSQEFDSQEQLVHHINSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHT 63
Query: 1126 DDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKRKTG 1185
++P KC ++GC+ ++ H+R HTG +PY+C GC + F SD ++H+ +T
Sbjct: 64 GEKPHKCTFEGCRKSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRT- 122
Query: 1186 HSAKK 1190
HS +K
Sbjct: 123 HSNEK 127
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 57/127 (44%), Gaps = 11/127 (8%)
Query: 1065 LNNAKIKDEEAGYHCDMEGCTMS---FGTKQELVLH-------KKNICPVKGCGKKFFSH 1114
+N+ I E + C GC+ F + LV+H K + C +GC K +
Sbjct: 23 INSEHIHGERKEFVCHWGGCSRELRPFKAQYMLVVHMRRHTGEKPHKCTFEGCRKSYSRL 82
Query: 1115 KYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHI-RVHTGARPYVCAEPGCGQTFRF 1173
+ L H R H ++P C +GC F A R +H R H+ +PYVC PGC + +
Sbjct: 83 ENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPGCTKRYTD 142
Query: 1174 VSDFSRH 1180
S +H
Sbjct: 143 PSSLRKH 149
>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 = 68.9 bits (167), Expect = 1e-11, Method: Composition-based stats.
Identities = 34/106 (32%), Positives = 51/106 (48%), Gaps = 4/106 (3%)
Query: 1079 CDMEGCTMSF----GTKQELVLHKKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPW 1134
C +GCT F ++ L H + CGK F L +H+ VH ++P +C +
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTHGPRVHVCAECGKAFVESSKLKRHQLVHTGEKPFQCTF 67
Query: 1135 KGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
+GC F + H+R+HTG RPYVC GC + F ++ H
Sbjct: 68 EGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSH 113
Score = 47.4 bits (111), Expect = 5e-05, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 28/57 (49%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGAR 1158
C +GCGK+F L H R+H DRP CP+ GC F + HI H A+
Sbjct: 65 CTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTHAKAK 121
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 26/81 (32%), Positives = 34/81 (41%), Gaps = 3/81 (3%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CP KGC K F + + +H H R C C F + H VHTG +P+
Sbjct: 8 CPHKGCTKMFRDNSAMRKHLHTH-GPRVHVC--AECGKAFVESSKLKRHQLVHTGEKPFQ 64
Query: 1162 CAEPGCGQTFRFVSDFSRHKR 1182
C GCG+ F + H R
Sbjct: 65 CTFEGCGKRFSLDFNLRTHVR 85
Score = 40.8 bits (94), Expect = 0.005, Method: Composition-based stats.
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 1125 LDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHK 1181
++ R + CP KGC F+ A +H+ H G R +VCAE CG+ F S RH+
Sbjct: 1 MEPRTIACPHKGCTKMFRDNSAMRKHLHTH-GPRVHVCAE--CGKAFVESSKLKRHQ 54
Score = 32.0 bits (71), Expect = 2.4, Method: Composition-based stats.
Identities = 17/58 (29%), Positives = 25/58 (43%), Gaps = 7/58 (12%)
Query: 1074 EAGYHCDMEGC----TMSFGTKQELVLHKKN---ICPVKGCGKKFFSHKYLVQHRRVH 1124
E + C EGC ++ F + + +H + +CP GC KKF L H H
Sbjct: 60 EKPFQCTFEGCGKRFSLDFNLRTHVRIHTGDRPYVCPFDGCNKKFAQSTNLKSHILTH 117
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 60.1 bits (144), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 40/115 (34%), Positives = 53/115 (46%), Gaps = 22/115 (19%)
Query: 1084 CTMSFGTKQELVLH-----------KKNICPVKGC---GKKFFSHKYLVQHRRVHLDDRP 1129
C +F T ELV H ++C + C GK F + LV H RVH ++P
Sbjct: 31 CDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKP 90
Query: 1130 LKCPWKGCKMTFKWAWARTE----HIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
CP+ GC F AR+E H R HTG +P+ C GC + F SD +H
Sbjct: 91 FPCPFPGCGKIF----ARSENLKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKH 141
Score = 38.5 bits (88), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 23/91 (25%)
Query: 1065 LNNAKIKDEEAGYHCDMEGCTMSFGTKQELVLHKKNICPVKGCGKKFFSHKYLVQHRRVH 1124
+N+ ++ E + C GC F + L +HK R H
Sbjct: 79 VNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHK-----------------------RTH 115
Query: 1125 LDDRPLKCPWKGCKMTFKWAWARTEHIRVHT 1155
++P KC ++GC F + R +H+ VHT
Sbjct: 116 TGEKPFKCEFEGCDRRFANSSDRKKHMHVHT 146
>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 = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 40/125 (32%), Positives = 56/125 (44%), Gaps = 15/125 (12%)
Query: 1065 LNNAKIKDEEAGYHCDMEGCTMSFGTKQELVLHKKNI-------CPVKGCGKKFFSHKYL 1117
+ A ++ E Y C C SF L H++ CP CGK F K L
Sbjct: 10 VAQAALEPGEKPYACPE--CGKSFSRSDHLAEHQRTHTGEKPYKCPE--CGKSFSDKKDL 65
Query: 1118 VQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDF 1177
+H+R H ++P KCP C +F H R HTG +PY C P CG++F ++
Sbjct: 66 TRHQRTHTGEKPYKCPE--CGKSFSQRANLRAHQRTHTGEKPYAC--PECGKSFSQLAHL 121
Query: 1178 SRHKR 1182
H+R
Sbjct: 122 RAHQR 126
Score = 54.7 bits (130), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 38/115 (33%), Positives = 53/115 (46%), Gaps = 15/115 (13%)
Query: 1084 CTMSFGTKQELVLHKKN-------ICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKG 1136
C SF + L H++ CP CGK F +L H+R H ++P KCP
Sbjct: 83 CGKSFSQRANLRAHQRTHTGEKPYACPE--CGKSFSQLAHLRAHQRTHTGEKPYKCPE-- 138
Query: 1137 CKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKRKTGHSAKKS 1191
C +F H R HTG +PY C P CG++F + H+R H+ KK+
Sbjct: 139 CGKSFSREDNLHTHQRTHTGEKPYKC--PECGKSFSRRDALNVHQRT--HTGKKT 189
>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 = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 32/81 (39%), Positives = 43/81 (53%), Gaps = 6/81 (7%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CP CGK F L +H+R H ++P KCP C +F + +H R HTG +PY
Sbjct: 7 CPE--CGKSFSQSSNLQKHQRTHTGEKPYKCPE--CGKSFSQSSDLQKHQRTHTGEKPYK 62
Query: 1162 CAEPGCGQTFRFVSDFSRHKR 1182
C P CG++F SRH+R
Sbjct: 63 C--PECGKSFSRSDHLSRHQR 81
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound To
Its Target Dna
Length = 90
Score = 56.6 bits (135), Expect = 9e-08, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
C GCGK + +L H R H ++P C W GC F + T H R HTG RP+
Sbjct: 9 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 68
Query: 1162 CAEPGCGQTFRFVSDFSRHKRK 1183
C + C + F + H ++
Sbjct: 69 CQK--CDRAFSRSDHLALHMKR 88
Score = 30.4 bits (67), Expect = 6.8, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 29/81 (35%)
Query: 1074 EAGYHCDMEGCTMSFGTKQELVLHKKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCP 1133
E YHCD + GCG KF L +H R H RP +C
Sbjct: 34 EKPYHCDWD-----------------------GCGWKFARSDELTRHYRKHTGHRPFQC- 69
Query: 1134 WKGCKMTFKWAWARTEHIRVH 1154
+ C F +R++H+ +H
Sbjct: 70 -QKCDRAF----SRSDHLALH 85
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound To
Its Target Dna
Length = 89
Score = 56.2 bits (134), Expect = 1e-07, Method: Composition-based stats.
Identities = 27/82 (32%), Positives = 38/82 (46%), Gaps = 2/82 (2%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
C GCGK + +L H R H ++P C W GC F + T H R HTG RP+
Sbjct: 8 CDYAGCGKTYTKSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQ 67
Query: 1162 CAEPGCGQTFRFVSDFSRHKRK 1183
C + C + F + H ++
Sbjct: 68 CQK--CDRAFSRSDHLALHMKR 87
Score = 30.0 bits (66), Expect = 7.9, Method: Composition-based stats.
Identities = 22/81 (27%), Positives = 31/81 (38%), Gaps = 29/81 (35%)
Query: 1074 EAGYHCDMEGCTMSFGTKQELVLHKKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCP 1133
E YHCD + GCG KF L +H R H RP +C
Sbjct: 33 EKPYHCDWD-----------------------GCGWKFARSDELTRHYRKHTGHRPFQC- 68
Query: 1134 WKGCKMTFKWAWARTEHIRVH 1154
+ C F +R++H+ +H
Sbjct: 69 -QKCDRAF----SRSDHLALH 84
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 53.9 bits (128), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 37/72 (51%), Gaps = 2/72 (2%)
Query: 1100 NICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARP 1159
+ C GC K + +L H R H ++P KC W+GC F + T H R HTGA+P
Sbjct: 16 HYCDYPGCTKVYTKSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRKHTGAKP 75
Query: 1160 YVCAEPGCGQTF 1171
+ C C ++F
Sbjct: 76 FQCGV--CNRSF 85
>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 = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSDSSNLTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 CD--ICGRKF 72
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSDSSNLTRHIRIHTGQKPFQC 37
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domains
From Human Krueppel-Like Factor 10
Length = 72
Score = 50.8 bits (120), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%)
Query: 1098 KKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVH 1154
+ +IC GCGK +F +L H R H ++P C WKGC+ F + + H R H
Sbjct: 16 RSHICSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRRTH 72
Score = 37.4 bits (85), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%)
Query: 1132 CPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKR 1182
C GC T+ + H R HTG +P+ C+ GC + F + SRH+R
Sbjct: 20 CSHPGCGKTYFKSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHRR 70
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 50.1 bits (118), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSQSGSLTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 CDI--CGRKF 72
Score = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSQSGSLTRHIRIHTGQKPFQC 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 = 50.1 bits (118), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 CD--ICGRKF 72
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 37
>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 = 50.1 bits (118), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSRSAELTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 C--DICGRKF 72
Score = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSRSAELTRHIRIHTGQKPFQC 37
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 6 CPVESCDRRFSRSDELTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 63
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 64 CD--ICGRKF 71
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 1 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 36
>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 = 49.7 bits (117), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 4/81 (4%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L H R+H +P +C + C F + HIR HTG +P+
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTGQKPFQC--RICMRNFSQQASLNAHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTFRFVSDFSRHKR 1182
C CG+ F + +RH +
Sbjct: 65 CDI--CGRKFATLHTRTRHTK 83
Score = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQC 37
>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 = 1e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSRSADLTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 C--DICGRKF 72
Score = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSRSADLTRHIRIHTGQKPFQC 37
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A Zif268-
Dna Complex At 2.1 Angstroms
Length = 87
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 37/70 (52%), Gaps = 4/70 (5%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L +H R+H +P +C + C F + T HIR HTG +P+
Sbjct: 7 CPVESCDRRFSRSDELTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTF 1171
C CG+ F
Sbjct: 65 CD--ICGRKF 72
Score = 38.1 bits (87), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 21/36 (58%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F + T HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 37
>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 = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 39/81 (48%), Gaps = 4/81 (4%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYV 1161
CPV+ C ++F L H R+H +P +C + C F +HIR HTG +P+
Sbjct: 7 CPVESCDRRFSQKTNLDTHIRIHTGQKPFQC--RICMRNFSQHTGLNQHIRTHTGEKPFA 64
Query: 1162 CAEPGCGQTFRFVSDFSRHKR 1182
C CG+ F + RH +
Sbjct: 65 CDI--CGRKFATLHTRDRHTK 83
Score = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
+RP CP + C F HIR+HTG +P+ C
Sbjct: 2 ERPYACPVESCDRRFSQKTNLDTHIRIHTGQKPFQC 37
>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 = 47.4 bits (111), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 33/62 (53%)
Query: 1101 ICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPY 1160
+C GC K++F +L H R H ++P +C +K C+ F + H R HTG +P+
Sbjct: 8 MCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHTGVKPF 67
Query: 1161 VC 1162
C
Sbjct: 68 QC 69
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 48/115 (41%), Gaps = 9/115 (7%)
Query: 1073 EEAGYHCDMEGCTMSFGTKQELVLH-------KKNICPVKGCGKKFFSHKYLVQHRRVHL 1125
E+ + C GC + L +H K C K C ++F L +H+R H
Sbjct: 3 EKRPFMCAYPGCNKRYFKLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRRHT 62
Query: 1126 DDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
+P +C K C+ F + H R HTG +P+ C P C + F + RH
Sbjct: 63 GVKPFQC--KTCQRKFSRSDHLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 46.2 bits (108), Expect = 1e-04, Method: Composition-based stats.
Identities = 23/83 (27%), Positives = 35/83 (42%)
Query: 1098 KKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGA 1157
K+ IC CG + + L H H ++P C +GC+ F T H HTG
Sbjct: 2 KRYICSFADCGAAYNKNWKLQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLTHTGE 61
Query: 1158 RPYVCAEPGCGQTFRFVSDFSRH 1180
+ + C GC F ++ +H
Sbjct: 62 KNFTCDSDGCDLRFTTKANMKKH 84
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRV-HLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPY 1160
C GCG+ F + +YL H++ H+ + CP C +F + EH+++H+ R Y
Sbjct: 10 CDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSDTRDY 69
Query: 1161 VCAEPG 1166
+C G
Sbjct: 70 ICEFSG 75
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 1075 AGYHCDMEGCTMSFGTKQELVLHKKN--------ICPVKGCGKKFFSHKYLVQHRRVHLD 1126
+G CD GC F +Q L HKK CP CGK F K+L +H ++H D
Sbjct: 6 SGMPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMKLHSD 65
Query: 1127 DRPLKCPWKG 1136
R C + G
Sbjct: 66 TRDYICEFSG 75
Score = 29.6 bits (65), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 1130 LKCPWKGCKMTFKWAWARTEHIRV-HTGARPYVCAEPGCGQTFRFVSDFSRHKR 1182
+ C + GC F H + H + + C EP CG++F F H +
Sbjct: 8 MPCDFPGCGRIFSNRQYLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEHMK 61
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 38/92 (41%), Gaps = 9/92 (9%)
Query: 1074 EAGYHCDMEGCTMSFGTKQELVLHKKN---------ICPVKGCGKKFFSHKYLVQHRRVH 1124
E + CD +GC + F TK + H +C + CGK F H L H+ H
Sbjct: 70 EKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICVYVCHFENCGKAFKKHNQLKVHQFSH 129
Query: 1125 LDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG 1156
P +CP +GC F H +VH G
Sbjct: 130 TQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 161
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 40/92 (43%)
Query: 1089 GTKQELVLHKKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWART 1148
G K V++K+ IC CG + + L H H ++P C +GC+ F T
Sbjct: 2 GEKALPVVYKRYICSFADCGAAYNKNWKLQAHLCKHTGEKPFPCKEEGCEKGFTSLHHLT 61
Query: 1149 EHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
H HTG + + C GC F ++ +H
Sbjct: 62 RHSLTHTGEKNFTCDSDGCDLRFTTKANMKKH 93
Score = 33.1 bits (74), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 45/122 (36%), Gaps = 10/122 (8%)
Query: 1079 CDMEGCTMSFGTKQELVLH-------KKNICPVKGCGKKFFSHKYLVQH-RRVH-LDDRP 1129
C EGC F + L H K C GC +F + + +H R H +
Sbjct: 45 CKEEGCEKGFTSLHHLTRHSLTHTGEKNFTCDSDGCDLRFTTKANMKKHFNRFHNIKICV 104
Query: 1130 LKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH-KRKTGHSA 1188
C ++ C FK H HT PY C GC + F S RH K G+
Sbjct: 105 YVCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAGYPC 164
Query: 1189 KK 1190
KK
Sbjct: 165 KK 166
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPG 1166
CGK F +H +HL RP C C FK H+++HTG +PY C
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRPYGCGV--CGKKFKMKHHLVGHMKIHTGIKPYECNI-- 70
Query: 1167 CGQTFRFVSDFSRH 1180
C + F + F RH
Sbjct: 71 CAKRFMWRDSFHRH 84
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 35/80 (43%), Gaps = 4/80 (5%)
Query: 1104 VKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCA 1163
K CGK F L H +H D RP C + C F +H +HTG +P+ C
Sbjct: 4 CKICGKSFKRSSTLSTHLLIHSDTRPYPCQY--CGKRFHQKSDMKKHTFIHTGEKPHKCQ 61
Query: 1164 EPGCGQTFRFVSDFSRHKRK 1183
CG+ F S+ H RK
Sbjct: 62 V--CGKAFSQSSNLITHSRK 79
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 2/54 (3%)
Query: 1103 PVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG 1156
P + CGK+F + +H +H ++P KC + C F + H R HTG
Sbjct: 31 PCQYCGKRFHQKSDMKKHTFIHTGEKPHKC--QVCGKAFSQSSNLITHSRKHTG 82
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 34/67 (50%), Gaps = 6/67 (8%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG--ARPYVCAE 1164
CGK F +L +H+ H ++P CP C + FK + H+R H G +PY+C
Sbjct: 13 CGKIFRDVYHLNRHKLSHSGEKPYSCPV--CGLRFKRKDRMSYHVRSHDGSVGKPYICQS 70
Query: 1165 PGCGQTF 1171
CG+ F
Sbjct: 71 --CGKGF 75
>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 = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 38/108 (35%), Gaps = 33/108 (30%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKG------------------------- 1136
CP C KKF S YL H R H ++P +CP G
Sbjct: 10 CPT--CHKKFLSKYYLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVF 67
Query: 1137 ----CKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
C+ TF+ H+ HTG PY C+ C Q F D H
Sbjct: 68 TCSVCQETFRRRMELRLHMVSHTGEMPYKCSS--CSQQFMQKKDLQSH 113
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 40.0 bits (92), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 24/49 (48%), Gaps = 2/49 (4%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHT 1155
CGK F LVQH+RVH ++P KC C F H R+HT
Sbjct: 20 CGKAFSRSSILVQHQRVHTGEKPYKCLE--CGKAFSQNSGLINHQRIHT 66
Score = 36.2 bits (82), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKR 1182
++P C C F + +H RVHTG +PY C E CG+ F S H+R
Sbjct: 12 EKPYGCVE--CGKAFSRSSILVQHQRVHTGEKPYKCLE--CGKAFSQNSGLINHQR 63
>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 = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 1102 CPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHT 1155
CPV+ C ++F L +H R+H +P +C + C F + T HIR HT
Sbjct: 22 CPVESCDRRFSRSDELTRHIRIHTGQKPFQC--RICMRNFSRSDHLTTHIRTHT 73
Score = 37.7 bits (86), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 20/35 (57%)
Query: 1128 RPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
RP CP + C F + T HIR+HTG +P+ C
Sbjct: 18 RPYACPVESCDRRFSRSDELTRHIRIHTGQKPFQC 52
>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 = 38.1 bits (87), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 6/74 (8%)
Query: 1098 KKNICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGA 1157
K+ IC K CG+ F L+ H R H D+RP C C F+ +H +H+
Sbjct: 16 KEFIC--KFCGRHFTKSYNLLIHERTHTDERPYTCDI--CHKAFRRQDHLRDHRYIHSKE 71
Query: 1158 RPYVCAEPGCGQTF 1171
+P+ C E CG+ F
Sbjct: 72 KPFKCQE--CGKGF 83
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 36.6 bits (83), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 4/54 (7%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRH 1180
+RP C + C T++ A + H R H G RP C P CG+ FR S+ +RH
Sbjct: 2 ERPFFCNF--CGKTYRDASGLSRHRRAHLGYRPRSC--PECGKCFRDQSEVNRH 51
Score = 32.7 bits (73), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 2/48 (4%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVH 1154
CGK + L +HRR HL RP CP C F+ H++VH
Sbjct: 10 CGKTYRDASGLSRHRRAHLGYRPRSCPE--CGKCFRDQSEVNRHLKVH 55
>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 = 36.6 bits (83), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%)
Query: 1101 ICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG 1156
+C + CGK F H L H+ H P +CP +GC F H +VH G
Sbjct: 3 VCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>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 = 36.2 bits (82), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%)
Query: 1101 ICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG 1156
+C + CGK F H L H+ H P +CP +GC F H +VH G
Sbjct: 3 VCHFENCGKAFKKHNQLKVHQFSHTQQLPYECPHEGCDKRFSLPSRLKRHEKVHAG 58
>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 = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 2/56 (3%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVC 1162
CGK F L H R H +P KC K C + + +H+R+H+ RP+ C
Sbjct: 14 CGKCFSRKDKLKTHMRCHTGVKPYKC--KTCDYAAADSSSLNKHLRIHSDERPFKC 67
Score = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 2/40 (5%)
Query: 1117 LVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTG 1156
L +H R+H D+RP KC C + + T H+R HTG
Sbjct: 52 LNKHLRIHSDERPFKCQI--CPYASRNSSQLTVHLRSHTG 89
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain Of
Zinc Finger Protein 435
Length = 77
Score = 35.4 bits (80), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 25/53 (47%), Gaps = 2/53 (3%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARP 1159
CGK F L +HRR H ++P KC C F H RVHTG+ P
Sbjct: 24 CGKSFSHSSDLSKHRRTHTGEKPYKCD--ECGKAFIQRSHLIGHHRVHTGSGP 74
Score = 30.0 bits (66), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 1137 CKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTF 1171
C +F + ++H R HTG +PY C E CG+ F
Sbjct: 24 CGKSFSHSSDLSKHRRTHTGEKPYKCDE--CGKAF 56
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 4/56 (7%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKR 1182
D+P KC C+ +F++ H VHTG +PY C CG F ++ H R
Sbjct: 15 DKPYKCDR--CQASFRYKGNLASHKTVHTGEKPYRCNI--CGAQFNRPANLKTHTR 66
>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 = 33.9 bits (76), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 27/54 (50%), Gaps = 4/54 (7%)
Query: 1128 RPLKCPWKGCKMTFKWAWARTEHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHK 1181
+P +C + C F + T HIR HTG +P+ C CG+ F + RH+
Sbjct: 2 KPFQC--RICMRNFSRSDHLTTHIRTHTGEKPFAC--DICGRKFARSDERKRHR 51
>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 = 33.1 bits (74), Expect = 0.99, Method: Composition-based stats.
Identities = 15/41 (36%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 1149 EHIRVHTGARPYVCAEPGCGQTFRFVSDFSRHKRKTGHSAK 1189
+HIR HT RPY C C +F+ + ++H + HS K
Sbjct: 19 KHIRTHTDVRPYHCTY--CNFSFKTKGNLTKHMKSKAHSKK 57
>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 = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRP 1129
CGK F +L+QH+R+H ++P
Sbjct: 18 CGKSFIQSAHLIQHQRIHTGEKP 40
>pdb|2ENT|A Chain A, Solution Structure Of The Second C2h2-Type Zinc Finger
Domain From Human Krueppel-Like Factor 15
Length = 48
Score = 32.0 bits (71), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 1158 RPYVCAEPGCGQTFRFVSDFSRHKRKTGHSAKKSRG 1193
+P+ C PGCG F + SRH+R HS K G
Sbjct: 11 KPFACTWPGCGWRFSRSDELSRHRRS--HSGVKPSG 44
>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 = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 1101 ICPVKGCGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVHTGARPY 1160
IC V C + + L +H +H ++ K P + C+ F A RT+H HTG R Y
Sbjct: 24 ICIV--CKRSYVCLTSLRRHFNIHSWEK--KYPCRYCEKVFPLAEYRTKHEIHHTGERRY 79
Query: 1161 VCAEPGCGQTF 1171
C CG++F
Sbjct: 80 QCL--ACGKSF 88
>pdb|2EMK|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region 668-
700) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 1104 VKGCGKKFFSHKYLVQHRRVHLDDRP 1129
K CGK F +L+QH+RVH ++P
Sbjct: 15 CKECGKAFSQTTHLIQHQRVHTGEKP 40
>pdb|2YTD|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region 426-
458) Of Human Zinc Finger Protein 473
Length = 46
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRP 1129
CGK F H +L +HRR+H RP
Sbjct: 18 CGKAFHRHTHLNEHRRIHTGYRP 40
>pdb|2YRH|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain (699-
729) From Zinc Finger Protein 473
Length = 44
Score = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 24/39 (61%), Gaps = 4/39 (10%)
Query: 1155 TGARPYVCAEPGCGQTFRFVSDFSRHKRKTGHSAKKSRG 1193
+G +P VC E CG+TFR S S+H+R HS +K G
Sbjct: 6 SGKKPLVCNE--CGKTFRQSSCLSKHQRI--HSGEKPSG 40
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 30.8 bits (68), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 58/130 (44%), Gaps = 24/130 (18%)
Query: 783 PVLDNLLEKNTLRLHHQRILKSKRAKCVEREDAVSDDLLEDSSHMLPRRSQKSKQAKWMV 842
P+LDNLL+ N + I+K K ++ + + L++ ++
Sbjct: 204 PILDNLLKANVINKQEHDIIKQKTQIPLQARELIDTILVKGNA----------------- 246
Query: 843 REDAVSDDSLEDNSRQLYQRIPKSKPSKWIEREDAVSDDSLEDNSHQQHKRIPRDKQSK- 901
+ +SL++ LY+ + K K+I ED VS SLE +Q +R+ ++ K
Sbjct: 247 -AANIFKNSLKEIDSTLYKNLFVDKNMKYIPTED-VSGLSLE----EQLRRLQEERTCKV 300
Query: 902 CTEMEDTVFY 911
C + E +V +
Sbjct: 301 CMDKEVSVVF 310
>pdb|2EPZ|A Chain A, Solution Structure Of The 4th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 28 Homolog
Length = 46
Score = 30.8 bits (68), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 15/23 (65%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRP 1129
CGK F H L QHRR+H ++P
Sbjct: 18 CGKAFSDHIGLNQHRRIHTGEKP 40
>pdb|1BHI|A Chain A, Structure Of Transactivation Domain Of Cre-Bp1ATF-2, Nmr, 20
Structures
Length = 38
Score = 30.8 bits (68), Expect = 5.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 1158 RPYVCAEPGCGQTFRFVSDFSRHKRK 1183
+P++C PGCGQ F + HK K
Sbjct: 5 KPFLCTAPGCGQRFTNEDHLAVHKHK 30
>pdb|1ZFD|A Chain A, Swi5 Zinc Finger Domain 2, Nmr, 45 Structures
Length = 32
Score = 30.0 bits (66), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 14/25 (56%)
Query: 1158 RPYVCAEPGCGQTFRFVSDFSRHKR 1182
RPY C PGC + F D RHK+
Sbjct: 2 RPYSCDHPGCDKAFVRNHDLIRHKK 26
>pdb|2EM9|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region 367-
399) Of Human Zinc Finger Protein 224
Length = 46
Score = 30.0 bits (66), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%), Gaps = 2/33 (6%)
Query: 1127 DRPLKCPWKGCKMTFKWAWARTEHIRVHTGARP 1159
++P C K C +F+WA +H RVH+G +P
Sbjct: 10 EKPYNC--KECGKSFRWASCLLKHQRVHSGEKP 40
>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 = 30.0 bits (66), Expect = 9.0, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 6/48 (12%)
Query: 1107 CGKKFFSHKYLVQHRRVHLDDRPLKCPWKGCKMTFKWAWARTEHIRVH 1154
CGK F S+ YL H R H ++P KC + ++A A+ +R H
Sbjct: 10 CGKFFRSNYYLNIHLRTHTGEKPYKCEF------CEYAAAQKTSLRYH 51
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
0.315 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 34,280,168
Number of Sequences: 62578
Number of extensions: 1377460
Number of successful extensions: 3393
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 43
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 3157
Number of HSP's gapped (non-prelim): 178
length of query: 1193
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1083
effective length of database: 8,089,757
effective search space: 8761206831
effective search space used: 8761206831
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)