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= 046329
(280 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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 56/143 (39%), Gaps = 34/143 (23%)
Query: 110 ILVGPTQFSCPVCNKTFNRYNNMQMHMWGH-GSQYRKGPESLRGTKAVSSMLRLPCYCCA 168
+ G ++CP C K+F+R +++ H H G + K PE
Sbjct: 15 LEPGEKPYACPECGKSFSRSDHLAEHQRTHTGEKPYKCPEC------------------- 55
Query: 169 EGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK--NCGK 226
+ D + L H + G KP+ C +CGK F+ R + R H++ K
Sbjct: 56 -----------GKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEK 104
Query: 227 LWFC-ICGSDFKHKRSLKDHVRS 248
+ C CG F L+ H R+
Sbjct: 105 PYACPECGKSFSQLAHLRAHQRT 127
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 50/126 (39%), Gaps = 21/126 (16%)
Query: 108 EQILVGPTQFSCPVCNKTFNRYNNMQMHMWGH-GSQYRKGPESLRGTKAVSSMLRLPCYC 166
++ G + CP C K+F++ N++ H H G + PE K+ S + L +
Sbjct: 69 QRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPYACPEC---GKSFSQLAHLRAH- 124
Query: 167 CAEGCKNNIGHPRSRPLK---------DFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDW 217
H +P K L TH + G KP+ C +CGK F+ R
Sbjct: 125 -------QRTHTGEKPYKCPECGKSFSREDNLHTHQRTHTGEKPYKCPECGKSFSRRDAL 177
Query: 218 RTHEKN 223
H++
Sbjct: 178 NVHQRT 183
>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 = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 36/66 (54%), Gaps = 6/66 (9%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHE-KNC----GKLWFC-ICGSDFKHKRSL 242
L+ H ++ G KPF C KCGK + + + HE +NC +++ C +C F+ + L
Sbjct: 23 LKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMEL 82
Query: 243 KDHVRS 248
+ H+ S
Sbjct: 83 RLHMVS 88
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGH 139
F+C VC +TF R +++HM H
Sbjct: 67 FTCSVCQETFRRRMELRLHMVSH 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 = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 30/63 (47%), Gaps = 3/63 (4%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGSDFKHKRSLKDH 245
LQ H + G KP+ C +CGK F+ D + H++ K + C CG F L H
Sbjct: 20 LQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH 79
Query: 246 VRS 248
R+
Sbjct: 80 QRT 82
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 31/107 (28%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGH-GSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNI 175
+ CP C K+F++ +N+Q H H G + K PE + S
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSD----------------- 47
Query: 176 GHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
LQ H + G KP+ C +CGK F+ H++
Sbjct: 48 -------------LQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQR 81
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGSDFKHKRSLKDHVRS 248
KP+ C +CGK F+ + + H++ K + C CG F L+ H R+
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRT 54
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 17/25 (68%)
Query: 198 GAKPFGCRKCGKPFAVRGDWRTHEK 222
G KP+ C++CGK F+ RG HE+
Sbjct: 7 GEKPYQCKECGKSFSQRGSLAVHER 31
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 45
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 113 GPTQFSCPVCNKTFNRYNNMQMHMWGH-GSQYRKGPES 149
G +SCPVC F R + M H+ H GS + GP S
Sbjct: 7 GEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKSGPSS 44
>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 = 31.6 bits (70), Expect = 0.49, Method: Composition-based stats.
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKN 223
L TH + G KPF C CG+ FA R D R ++
Sbjct: 19 LTTHIRTHTGEKPFACDICGRKFA-RSDERKRHRD 52
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 31.6 bits (70), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 24/56 (42%)
Query: 84 STSNPTPNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNMQMHMWGH 139
S S+ +I K+ Y + + G +SCPVC F R + M H+ H
Sbjct: 3 SGSSGVACEICGKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSH 58
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 5/75 (6%)
Query: 183 LKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDW----RTHEKNCGKLWFC-ICGSDFK 237
+D L H G KP+ C CG F + R+H+ + GK + C CG F
Sbjct: 17 FRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFS 76
Query: 238 HKRSLKDHVRSFGDG 252
L H++ G
Sbjct: 77 RPDHLNGHIKQVHSG 91
>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 = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 39/108 (36%), Gaps = 31/108 (28%)
Query: 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNN 174
++CPV C++ F+R + + H+ H Q P C C N
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQK-------------------PFQC--RICMRN 43
Query: 175 IGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 44 FSRSDH--------LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF----KHKRS 241
L H + G KPF CR C + F+ TH + + G+ F ICG F + KR
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
Query: 242 LKDHVR 247
K H+R
Sbjct: 82 TKIHLR 87
>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 = 31.2 bits (69), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 39/108 (36%), Gaps = 31/108 (28%)
Query: 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNN 174
++CPV C++ F+R + + H+ H Q P C C N
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIHTGQK-------------------PFQC--RICMRN 42
Query: 175 IGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 43 FSRSDH--------LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 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 = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 33/74 (44%), Gaps = 7/74 (9%)
Query: 181 RPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF- 236
R D L H + G KPF CR C + F+ TH + + G+ F ICG F
Sbjct: 14 RRFSDSSNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFA 73
Query: 237 ---KHKRSLKDHVR 247
+ KR K H+R
Sbjct: 74 RSDERKRHTKIHLR 87
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.8 bits (68), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 39/108 (36%), Gaps = 31/108 (28%)
Query: 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNN 174
++CPV C++ F+R + + H+ H Q P C C N
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIHTGQK-------------------PFQC--RICMRN 43
Query: 175 IGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 44 FSRSDH--------LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 188 TLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF----KHKR 240
+L H + G KPF CR C + F+ TH + + G+ F ICG F + KR
Sbjct: 21 SLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKR 80
Query: 241 SLKDHVR 247
K H+R
Sbjct: 81 HTKIHLR 87
>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 = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF----KHKRS 241
L H + G KPF CR C + F+ TH + + G+ F ICG F + KR
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
Query: 242 LKDHVR 247
K H+R
Sbjct: 82 TKIHLR 87
>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 = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 7/66 (10%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF----KHKRS 241
L H + G KPF CR C + F+ TH + + G+ F ICG F + KR
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
Query: 242 LKDHVR 247
K H+R
Sbjct: 82 TKIHLR 87
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 30.4 bits (67), Expect = 1.1, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 44/89 (49%), Gaps = 10/89 (11%)
Query: 74 IGPPTTEAAGSTSNPT-PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNM 132
I PT+++ + +N T P +V+ + Q +P +V P+ + C VCN F+ + +
Sbjct: 61 ITRPTSDSIAAVANATKPAAVVS---DPQSMKVTP---IVNPSSYVCNVCNARFSTMSAL 114
Query: 133 QMHMWGHGSQYRKGPESLRGTKAVSSMLR 161
H+ S +R +L T +++ +R
Sbjct: 115 SEHL---RSDHRDDASTLLATPMINNAIR 140
>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 = 1.1, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 40/104 (38%), Gaps = 27/104 (25%)
Query: 120 PVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPR 179
P CNK + + +++QMH H + P C + C+ R
Sbjct: 12 PGCNKRYFKLSHLQMHSRKHTGE-------------------KPYQCDFKDCERRFS--R 50
Query: 180 SRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKN 223
S LK H +R G KPF C+ C + F+ +TH +
Sbjct: 51 SDQLK------RHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRT 88
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHE 221
KP+ C +CGK F+VR TH+
Sbjct: 11 KPYECNQCGKAFSVRSSLTTHQ 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 = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 112 VGPTQFSCPVCNKTFNRYNNMQMHMWGH 139
G F C VCN++F+R +++ +HM H
Sbjct: 71 TGAKPFQCGVCNRSFSRSDHLALHMKRH 98
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 21/93 (22%), Positives = 33/93 (35%), Gaps = 27/93 (29%)
Query: 120 PVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIGHPR 179
P C K + + ++++ H+ H + P C EGC
Sbjct: 21 PGCTKVYTKSSHLKAHLRTHTGE-------------------KPYKCTWEGCDWRFARSD 61
Query: 180 SRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFA 212
L HY++ GAKPF C C + F+
Sbjct: 62 E--------LTRHYRKHTGAKPFQCGVCNRSFS 86
>pdb|3IYL|X Chain X, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|Y Chain Y, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1214
Score = 30.4 bits (67), Expect = 1.2, Method: Composition-based stats.
Identities = 22/89 (24%), Positives = 44/89 (49%), Gaps = 10/89 (11%)
Query: 74 IGPPTTEAAGSTSNPT-PNDIVNKLVEGQYWIPSPEQILVGPTQFSCPVCNKTFNRYNNM 132
I PT+++ + +N T P +V+ + Q +P +V P+ + C VCN F+ + +
Sbjct: 79 ITRPTSDSIAAVANATKPAAVVS---DPQSMKVTP---IVNPSSYVCNVCNARFSTMSAL 132
Query: 133 QMHMWGHGSQYRKGPESLRGTKAVSSMLR 161
H+ S +R +L T +++ +R
Sbjct: 133 SEHL---RSDHRDDASTLLATPMINNAIR 158
>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 = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 37/108 (34%), Gaps = 31/108 (28%)
Query: 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNN 174
++CPV C++ F++ N+ H+ H Q P C C N
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQK-------------------PFQC--RICMRN 43
Query: 175 IGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK 222
S L H + G KPF C CG+ FA H K
Sbjct: 44 FSQQAS--------LNAHIRTHTGEKPFACDICGRKFATLHTRTRHTK 83
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEK-NCGKLWFC--ICGSDF 236
L TH + G KPF CR C + F+ + H + + G+ F ICG F
Sbjct: 22 LDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKF 72
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 4/48 (8%)
Query: 181 RPLKDFRTLQTHYKRKHGAK----PFGCRKCGKPFAVRGDWRTHEKNC 224
+ + + L H+KR H F C KCGK F R H NC
Sbjct: 23 KTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHADNC 70
Score = 27.3 bits (59), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 11/22 (50%)
Query: 114 PTQFSCPVCNKTFNRYNNMQMH 135
P F C C KTF R N M H
Sbjct: 45 PAAFVCSKCGKTFTRRNTMARH 66
>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 = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 35/99 (35%), Gaps = 31/99 (31%)
Query: 117 FSCPV--CNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNN 174
++CPV C++ F++ N+ H+ H Q P C C +
Sbjct: 5 YACPVESCDRRFSQKTNLDTHIRIHTGQ---KP--------------FQCRICMRNFSQH 47
Query: 175 IGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAV 213
G L H + G KPF C CG+ FA
Sbjct: 48 TG------------LNQHIRTHTGEKPFACDICGRKFAT 74
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFC-ICGSDFKHKRSLKDHVR 247
KP+ C +C F +G+ +H+ K + C ICG+ F +LK H R
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
>pdb|2EPC|A Chain A, Solution Structure Of Zinc Finger Domain 7 In Zinc Finger
Protein 32
Length = 42
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 201 PFGCRKCGKPFAVRGDWRTHEKNCGK 226
P+ C +CGK F RG H+++C +
Sbjct: 11 PYLCGQCGKSFTQRGSLAVHQRSCSQ 36
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK--NCGKLWFCI-CGSDFKHKRSLKDHVR 247
KP+GC +CGK F+ H++ K + C+ CG F L +H R
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQR 63
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK 222
KPF C CGK F +G+ TH++
Sbjct: 11 KPFECTHCGKSFRAKGNLVTHQR 33
>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
612- 644) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK 222
KPF C +CGK F++ TH++
Sbjct: 11 KPFECAECGKSFSISSQLATHQR 33
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 39/107 (36%), Gaps = 29/107 (27%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPESLRGTKAVSSMLRLPCYCCAEGCKNNIG 176
F C +C K+F R + + H+ H S PC C +
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIH-----------------SDTRPYPCQYCGKR-----F 39
Query: 177 HPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKN 223
H +S +K + T G KP C+ CGK F+ + TH +
Sbjct: 40 HQKS-DMKKHTFIHT------GEKPHKCQVCGKAFSQSSNLITHSRK 79
>pdb|2EMW|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
301- 331) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 16/25 (64%)
Query: 198 GAKPFGCRKCGKPFAVRGDWRTHEK 222
G KP+GC +CGK F+ + H++
Sbjct: 7 GEKPYGCNECGKDFSSKSYLIVHQR 31
>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 = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 15/25 (60%)
Query: 198 GAKPFGCRKCGKPFAVRGDWRTHEK 222
G KP+ C +CGK F ++ HE+
Sbjct: 7 GQKPYVCNECGKAFGLKSQLIIHER 31
>pdb|2YTJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
771- 803) Of Human Zinc Finger Protein 484
Length = 46
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK 222
KP+ C +CGK F +R + H+K
Sbjct: 11 KPYICAECGKAFTIRSNLIKHQK 33
>pdb|1SQI|A Chain A, Structural Basis For Inhibitor Selectivity Revealed By
Crystal Structures Of Plant And Mammalian 4-
Hydroxyphenylpyruvate Dioxygenases
pdb|1SQI|B Chain B, Structural Basis For Inhibitor Selectivity Revealed By
Crystal Structures Of Plant And Mammalian 4-
Hydroxyphenylpyruvate Dioxygenases
Length = 393
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 28/61 (45%), Gaps = 7/61 (11%)
Query: 199 AKPFGCRKCG-KPFAVRG------DWRTHEKNCGKLWFCICGSDFKHKRSLKDHVRSFGD 251
A F C K G +P A +G + +H GK+ F +C + + + DH+ GD
Sbjct: 32 AASFYCNKMGFEPLAYKGLETGSREVVSHVIKQGKIVFVLCSALNPWNKEMGDHLVKHGD 91
Query: 252 G 252
G
Sbjct: 92 G 92
>pdb|2EMP|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
536- 568) Of Human Zinc Finger Protein 347
Length = 46
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 14/23 (60%)
Query: 199 AKPFGCRKCGKPFAVRGDWRTHE 221
KP+ C +CGK F+V TH+
Sbjct: 10 VKPYMCNECGKAFSVYSSLTTHQ 32
>pdb|2EQW|A Chain A, Solution Structure Of The 6th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 484
Length = 42
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 198 GAKPFGCRKCGKPFAVRGDWRTHEK 222
G KP+ C +CGK F + + THE+
Sbjct: 7 GEKPYVCTECGKAFIRKSHFITHER 31
>pdb|2YTF|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
607- 639) Of Human Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPES 149
F C C K FN +N+ +H H + GP S
Sbjct: 13 FECSECQKAFNTKSNLIVHQRTHTGEKPSGPSS 45
>pdb|2EL4|A Chain A, Solution Structure Of The 15th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 46
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 8/25 (32%), Positives = 16/25 (64%)
Query: 199 AKPFGCRKCGKPFAVRGDWRTHEKN 223
KP+GC +C K F+++ H+++
Sbjct: 10 VKPYGCSQCAKTFSLKSQLIVHQRS 34
>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 = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPES 149
F C C K F R + + MH H + GP S
Sbjct: 13 FECTECGKAFTRKSTLSMHQKIHTGEKPSGPSS 45
>pdb|2J21|A Chain A, Human P53 Core Domain Mutant M133l-V203a-N239y-N268d-R282w
pdb|2J21|B Chain B, Human P53 Core Domain Mutant M133l-V203a-N239y-N268d-R282w
Length = 219
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 24/62 (38%), Gaps = 6/62 (9%)
Query: 165 YCCAEGCKNNIGHPRSRPLKDFRTLQTHYKRKHGAKPFGCRKCGKPFAVRGDWRTHEKNC 224
Y C C +G RP+ TL+ G F R C P DWRT E+N
Sbjct: 143 YMCYSSC---MGGMNRRPILTIITLEDSSGNLLGRDSFEVRVCACPGR---DWRTEEENL 196
Query: 225 GK 226
K
Sbjct: 197 RK 198
>pdb|2ELZ|A Chain A, Solution Structure Of The 17th Zf-C2h2 Domain From Human
Zinc Finger Protein 224
Length = 46
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 117 FSCPVCNKTFNRYNNMQMHMWGHGSQYRKGPES 149
+ C C K +NR N+ MH H + GP S
Sbjct: 13 YKCEDCGKGYNRRLNLDMHQRVHMGEKTSGPSS 45
>pdb|2EN4|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
284- 316) Of Human Zinc Finger Protein 347
Length = 46
Score = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHE 221
KP+ C +CGK F R + TH+
Sbjct: 11 KPYKCYECGKAFRTRSNLTTHQ 32
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFA 212
L HY++ G +PF C+KC + F+
Sbjct: 54 LTRHYRKHTGHRPFQCQKCDRAFS 77
>pdb|2EP3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
631- 663) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 200 KPFGCRKCGKPFAVRGDWRTHEK 222
KP+ C +CGK F R + TH+K
Sbjct: 11 KPYRCAECGKAFTDRSNLFTHQK 33
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 189 LQTHYKRKHGAKPFGCRKCGKPFA 212
L HY++ G +PF C+KC + F+
Sbjct: 53 LTRHYRKHTGHRPFQCQKCDRAFS 76
>pdb|2EM7|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
339- 371) Of Human Zinc Finger Protein 224
Length = 46
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 200 KPFGCRKCGKPFAVRGDWRTH 220
KP+ C +CGK F R D TH
Sbjct: 11 KPYKCEECGKGFICRRDLYTH 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
0.318 0.134 0.441
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,753,614
Number of Sequences: 62578
Number of extensions: 356083
Number of successful extensions: 1066
Number of sequences better than 100.0: 94
Number of HSP's better than 100.0 without gapping: 84
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 846
Number of HSP's gapped (non-prelim): 214
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (24.3 bits)