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= psy8167
(167 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 22/74 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C + F R++ LK+H R HT +P C LC+++FTR
Sbjct: 5 CEVCTRAFARQEHLKRHYRS-HTNEKP---------------------YPCGLCNRAFTR 42
Query: 116 KDSLKKHNRIFHGG 129
+D L +H + H G
Sbjct: 43 RDLLIRHAQKIHSG 56
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 18/27 (66%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQN 80
PC LC++ FTR+D L +H + H+ N
Sbjct: 31 YPCGLCNRAFTRRDLLIRHAQKIHSGN 57
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 32/67 (47%), Gaps = 18/67 (26%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C+ CDKTF +K L H + +H N AAF+ C C K+FTR
Sbjct: 18 CSHCDKTFRQKQLLDMHFKRYHDPN--------------FVPAAFV----CSKCGKTFTR 59
Query: 116 KDSLKKH 122
++++ +H
Sbjct: 60 RNTMARH 66
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 22/86 (25%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAA 99
P CD+ F+R D L +HIRI HT +P + I G + A
Sbjct: 7 CPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA- 64
Query: 100 FIDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 65 ------CDICGRKFARSDERKRHTKI 84
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 ELCDKSFTRKDSLKKHNRIFHGGADP 132
E CD+ F+R D L +H RI H G P
Sbjct: 10 ESCDRRFSRSDELTRHIRI-HTGQKP 34
>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 = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 22/86 (25%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAA 99
P CD+ F+R D L +HIRI HT +P + I G + A
Sbjct: 6 CPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA- 63
Query: 100 FIDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 64 ------CDICGRKFARSDERKRHTKI 83
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 ELCDKSFTRKDSLKKHNRIFHGGADP 132
E CD+ F+R D L +H RI H G P
Sbjct: 9 ESCDRRFSRSDELTRHIRI-HTGQKP 33
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 36/86 (41%), Gaps = 22/86 (25%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAA 99
P CD+ F+R D L +HIRI HT +P + I G + A
Sbjct: 7 CPVESCDRRFSRSDELTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA- 64
Query: 100 FIDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 65 ------CDICGRKFARSDERKRHTKI 84
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 ELCDKSFTRKDSLKKHNRIFHGGADP 132
E CD+ F+R D L +H RI H G P
Sbjct: 10 ESCDRRFSRSDELTRHIRI-HTGQKP 34
>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 = 36.6 bits (83), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 32/73 (43%), Gaps = 22/73 (30%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C C K+F+R+D+L H R HT +P +C C KSF+R
Sbjct: 136 CPECGKSFSREDNLHTHQRT-HTGEKP---------------------YKCPECGKSFSR 173
Query: 116 KDSLKKHNRIFHG 128
+D+L H R G
Sbjct: 174 RDALNVHQRTHTG 186
Score = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 9/89 (10%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDR-------IRCEL 108
C C K+F+R D L +H R HT +P + + + R +C
Sbjct: 24 CPECGKSFSRSDHLAEHQRT-HTGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPE 82
Query: 109 CDKSFTRKDSLKKHNRIFHGGADPKLMDE 137
C KSF+++ +L+ H R H G P E
Sbjct: 83 CGKSFSQRANLRAHQRT-HTGEKPYACPE 110
Score = 35.8 bits (81), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 39/89 (43%), Gaps = 9/89 (10%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDR-------IRCEL 108
C C K+F+++ +L+ H R HT +P + A+ R +C
Sbjct: 80 CPECGKSFSQRANLRAHQRT-HTGEKPYACPECGKSFSQLAHLRAHQRTHTGEKPYKCPE 138
Query: 109 CDKSFTRKDSLKKHNRIFHGGADPKLMDE 137
C KSF+R+D+L H R H G P E
Sbjct: 139 CGKSFSREDNLHTHQRT-HTGEKPYKCPE 166
>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 = 36.2 bits (82), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 25/80 (31%)
Query: 48 VVPIDR---IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRI 104
VVP R P CD+ F+R D L +HIRI HT +P
Sbjct: 13 VVPKMRPYACPVESCDRRFSRSDELTRHIRI-HTGQKP---------------------F 50
Query: 105 RCELCDKSFTRKDSLKKHNR 124
+C +C ++F+R D L H R
Sbjct: 51 QCRICMRNFSRSDHLTTHIR 70
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 107 ELCDKSFTRKDSLKKHNRIFHGGADP 132
E CD+ F+R D L +H RI H G P
Sbjct: 25 ESCDRRFSRSDELTRHIRI-HTGQKP 49
>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 = 0.014, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 30/70 (42%), Gaps = 22/70 (31%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C K F+RKD LK H+R HT +P +C+ CD +
Sbjct: 11 CEVCGKCFSRKDKLKTHMRC-HTGVKP---------------------YKCKTCDYAAAD 48
Query: 116 KDSLKKHNRI 125
SL KH RI
Sbjct: 49 SSSLNKHLRI 58
Score = 33.1 bits (74), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 15/28 (53%), Positives = 18/28 (64%), Gaps = 1/28 (3%)
Query: 105 RCELCDKSFTRKDSLKKHNRIFHGGADP 132
+CE+C K F+RKD LK H R H G P
Sbjct: 10 KCEVCGKCFSRKDKLKTHMRC-HTGVKP 36
>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 = 35.4 bits (80), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 8/77 (10%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDR-------IRCEL 108
C C K+F++ +L+KH R HT +P + ++ R +C
Sbjct: 7 CPECGKSFSQSSNLQKHQRT-HTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPE 65
Query: 109 CDKSFTRKDSLKKHNRI 125
C KSF+R D L +H R
Sbjct: 66 CGKSFSRSDHLSRHQRT 82
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+C C KSF++ +L+KH R H G P
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRT-HTGEKP 32
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 35.0 bits (79), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 10/73 (13%)
Query: 59 CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIR---------CELC 109
C KT+T+ LK H+R HT +P H + + R C+ C
Sbjct: 14 CGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKC 72
Query: 110 DKSFTRKDSLKKH 122
D++F+R D L H
Sbjct: 73 DRAFSRSDHLALH 85
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 34.7 bits (78), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 22/86 (25%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAA 99
P CD+ F++ SL +HIRI HT +P + I G + A
Sbjct: 7 CPVESCDRRFSQSGSLTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA- 64
Query: 100 FIDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 65 ------CDICGRKFARSDERKRHTKI 84
>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 = 34.7 bits (78), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 35/85 (41%), Gaps = 22/85 (25%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAAF 100
P CD+ F+R L +HIRI HT +P + I G + A
Sbjct: 8 PVESCDRRFSRSAELTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA-- 64
Query: 101 IDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 65 -----CDICGRKFARSDERKRHTKI 84
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 34.7 bits (78), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 10/73 (13%)
Query: 59 CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIR---------CELC 109
C KT+T+ LK H+R HT +P H + + R C+ C
Sbjct: 13 CGKTYTKSSHLKAHLRT-HTGEKPYHCDWDGCGWKFARSDELTRHYRKHTGHRPFQCQKC 71
Query: 110 DKSFTRKDSLKKH 122
D++F+R D L H
Sbjct: 72 DRAFSRSDHLALH 84
>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 = 34.3 bits (77), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 35/85 (41%), Gaps = 22/85 (25%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV--------------IEVALGARANAAF 100
P CD+ F+R L +HIRI HT +P + I G + A
Sbjct: 8 PVESCDRRFSRSADLTRHIRI-HTGQKPFQCRICMRNFSRSDHLTTHIRTHTGEKPFA-- 64
Query: 101 IDRIRCELCDKSFTRKDSLKKHNRI 125
C++C + F R D K+H +I
Sbjct: 65 -----CDICGRKFARSDERKRHTKI 84
>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 = 34.3 bits (77), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 32/74 (43%), Gaps = 23/74 (31%)
Query: 59 CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTRKDS 118
C++ F+R D LK+H R +HT V +C+ C + F+R D
Sbjct: 44 CERRFSRSDQLKRHQR--------RHTGVKP--------------FQCKTCQRKFSRSDH 81
Query: 119 LKKHNRIFHGGADP 132
LK H R H G P
Sbjct: 82 LKTHTRT-HTGEKP 94
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 25/68 (36%), Gaps = 20/68 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C C + F+R D LK H R T+ E R + C K F R
Sbjct: 69 CKTCQRKFSRSDHLKTHTR----------THTGEKPFSCRWPS----------CQKKFAR 108
Query: 116 KDSLKKHN 123
D L +H+
Sbjct: 109 SDELVRHH 116
>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 = 0.047, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 22/72 (30%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C + F+R D L HIR HT +P C++C + F R
Sbjct: 6 CRICMRNFSRSDHLTTHIRT-HTGEKP---------------------FACDICGRKFAR 43
Query: 116 KDSLKKHNRIFH 127
D K+H I H
Sbjct: 44 SDERKRHRDIQH 55
>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 = 33.1 bits (74), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 29/70 (41%), Gaps = 22/70 (31%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C + F+R D L HIR HT +P C++C + F R
Sbjct: 37 CRICMRNFSRSDHLTTHIRT-HTGEKP---------------------FACDICGRKFAR 74
Query: 116 KDSLKKHNRI 125
D K+H +I
Sbjct: 75 SDERKRHTKI 84
Score = 31.6 bits (70), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 34/83 (40%), Gaps = 23/83 (27%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSF 113
P CD+ F+ +L +HIRI HT +P +C +C ++F
Sbjct: 7 CPVESCDRRFSDSSNLTRHIRI-HTGQKP---------------------FQCRICMRNF 44
Query: 114 TRKDSLKKHNRIFHGGADPKLMD 136
+R D L H R H G P D
Sbjct: 45 SRSDHLTTHIRT-HTGEKPFACD 66
>pdb|2DRP|A Chain A, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
pdb|2DRP|D Chain D, The Crystal Structure Of A Two Zinc-Finger Peptide
Reveals An Extension To The Rules For Zinc-FingerDNA
RECOGNITION
Length = 66
Score = 32.7 bits (73), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFH 77
PC C K FTRKD++ H++I H
Sbjct: 42 PCPFCFKEFTRKDNMTAHVKIIH 64
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%)
Query: 106 CELCDKSFTRKDSLKKHNRIFH 127
C C K FTRKD++ H +I H
Sbjct: 43 CPFCFKEFTRKDNMTAHVKIIH 64
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 32.3 bits (72), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 22/71 (30%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSF 113
PC C K F +K +KKH I HT +P +C++C K+F
Sbjct: 30 YPCQYCGKRFHQKSDMKKHTFI-HTGEKPH---------------------KCQVCGKAF 67
Query: 114 TRKDSLKKHNR 124
++ +L H+R
Sbjct: 68 SQSSNLITHSR 78
Score = 31.2 bits (69), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 31/77 (40%), Gaps = 23/77 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C K+F R +L H+ I H+ +P C+ C K F +
Sbjct: 4 CKICGKSFKRSSTLSTHLLI-HSDTRP---------------------YPCQYCGKRFHQ 41
Query: 116 KDSLKKHNRIFHGGADP 132
K +KKH I H G P
Sbjct: 42 KSDMKKHTFI-HTGEKP 57
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 32.0 bits (71), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 15/87 (17%)
Query: 56 CTL--CDKTFTRKDSLKKHIRIFHTQNQP---QHTNVIEVALGARANAAFIDRIR----- 105
CT C K+++R ++LK H+R HT +P +H + A A +R
Sbjct: 70 CTFEGCRKSYSRLENLKTHLRS-HTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKP 128
Query: 106 --CEL--CDKSFTRKDSLKKHNRIFHG 128
C+L C K +T SL+KH + HG
Sbjct: 129 YVCKLPGCTKRYTDPSSLRKHVKTVHG 155
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 32.0 bits (71), Expect = 0.15, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 16/32 (50%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNV 87
C C K F+R D L HI+ HT +P V
Sbjct: 15 CQSCGKGFSRPDHLNGHIKQVHTSERPHKCQV 46
>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 = 32.0 bits (71), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 36/82 (43%), Gaps = 23/82 (28%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFT 114
P CD+ F++K +L HIRI HT +P +C +C ++F+
Sbjct: 8 PVESCDRRFSQKTNLDTHIRI-HTGQKP---------------------FQCRICMRNFS 45
Query: 115 RKDSLKKHNRIFHGGADPKLMD 136
++ SL H R H G P D
Sbjct: 46 QQASLNAHIRT-HTGEKPFACD 66
>pdb|1PAA|A Chain A, Structure Of A Histidine-X4-Histidine Zinc Finger Domain:
Insights Into Adr1-Uas1 Protein-Dna Recognition
Length = 30
Score = 31.6 bits (70), Expect = 0.19, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGG 129
C LC+++FTR+D L +H + H G
Sbjct: 5 CGLCNRAFTRRDLLIRHAQKIHSG 28
Score = 31.6 bits (70), Expect = 0.22, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQN 80
C LC++ FTR+D L +H + H+ N
Sbjct: 5 CGLCNRAFTRRDLLIRHAQKIHSGN 29
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2 Domain
Of Zinc Finger Protein 435
Length = 77
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 33/80 (41%), Gaps = 23/80 (28%)
Query: 53 RIPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKS 112
R C C K+F+ L KH R HT +P +C+ C K+
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRT-HTGEKP---------------------YKCDECGKA 55
Query: 113 FTRKDSLKKHNRIFHGGADP 132
F ++ L H+R+ H G+ P
Sbjct: 56 FIQRSHLIGHHRV-HTGSGP 74
Score = 29.6 bits (65), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 103 RIRCELCDKSFTRKDSLKKHNRIFHGGADPKLMDE 137
R +C+ C KSF+ L KH R H G P DE
Sbjct: 18 RYKCDECGKSFSHSSDLSKHRRT-HTGEKPYKCDE 51
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 36/92 (39%), Gaps = 24/92 (26%)
Query: 44 SVGPVVPIDRIP-CTL--CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAF 100
S GP + RI C C K +T+ LK H+R HT +P
Sbjct: 5 SSGPDLEKRRIHYCDYPGCTKVYTKSSHLKAHLRT-HTGEKPY----------------- 46
Query: 101 IDRIRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+ E CD F R D L +H R H GA P
Sbjct: 47 --KCTWEGCDWRFARSDELTRHYRK-HTGAKP 75
Score = 30.0 bits (66), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 24/69 (34%)
Query: 56 CTL--CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSF 113
CT CD F R D L +H R HT +P +C +C++SF
Sbjct: 48 CTWEGCDWRFARSDELTRHYRK-HTGAKP---------------------FQCGVCNRSF 85
Query: 114 TRKDSLKKH 122
+R D L H
Sbjct: 86 SRSDHLALH 94
>pdb|2ENA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
311- 343) Of Human Zinc Finger Protein 224
Length = 46
Score = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
RC+ CDKSF ++ +L H R+ H G P
Sbjct: 13 FRCDTCDKSFRQRSALNSH-RMIHTGEKP 40
Score = 28.1 bits (61), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C CDK+F ++ +L H R+ HT +P
Sbjct: 15 CDTCDKSFRQRSALNSH-RMIHTGEKP 40
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 30.8 bits (68), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 28/77 (36%), Gaps = 20/77 (25%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C FT+ ++K HI HT+N + + C CD R
Sbjct: 18 CYICHARFTQSGTMKMHILQKHTEN--------------------VAKFHCPHCDTVIAR 57
Query: 116 KDSLKKHNRIFHGGADP 132
K L H R H + P
Sbjct: 58 KSDLGVHLRKQHSYSGP 74
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 30.0 bits (66), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 28/74 (37%), Gaps = 20/74 (27%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C F RKD + H+R H + +I C+ C K F+R
Sbjct: 38 CPVCGLRFKRKDRMSYHVR--------SHDGSV--------GKPYI----CQSCGKGFSR 77
Query: 116 KDSLKKHNRIFHGG 129
D L H + H G
Sbjct: 78 PDHLNGHIKQVHSG 91
>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 = 30.0 bits (66), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
CT C K FTRK +L H +I HT +P
Sbjct: 15 CTECGKAFTRKSTLSMHQKI-HTGEKP 40
Score = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
C C K+FTRK +L H +I H G P
Sbjct: 13 FECTECGKAFTRKSTLSMHQKI-HTGEKP 40
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 30.0 bits (66), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 28/77 (36%), Gaps = 23/77 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C C +F K +L H + HT +P RC +C F R
Sbjct: 20 CDRCQASFRYKGNLASH-KTVHTGEKP---------------------YRCNICGAQFNR 57
Query: 116 KDSLKKHNRIFHGGADP 132
+LK H RI H G P
Sbjct: 58 PANLKTHTRI-HSGEKP 73
>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 = 30.0 bits (66), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 35/82 (42%), Gaps = 23/82 (28%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFT 114
P CD+ F++K +L HIRI HT +P +C +C ++F+
Sbjct: 8 PVESCDRRFSQKTNLDTHIRI-HTGQKP---------------------FQCRICMRNFS 45
Query: 115 RKDSLKKHNRIFHGGADPKLMD 136
+ L +H R H G P D
Sbjct: 46 QHTGLNQHIRT-HTGEKPFACD 66
>pdb|2EPX|A Chain A, Solution Structure Of The Third C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 28 Homolog
Length = 47
Score = 29.6 bits (65), Expect = 0.80, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C C K F + SL +H R +HT +P
Sbjct: 15 CIECGKAFIQNTSLIRHWRYYHTGEKP 41
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C C K+F + SL +H R +H G P
Sbjct: 15 CIECGKAFIQNTSLIRHWRYYHTGEKP 41
>pdb|2WBT|A Chain A, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
pdb|2WBT|B Chain B, The Structure Of A Double C2h2 Zinc Finger Protein From A
Hyperthermophilic Archaeal Virus In The Absence Of Dna
Length = 129
Score = 29.6 bits (65), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 30/78 (38%), Gaps = 29/78 (37%)
Query: 51 IDRIPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCD 110
I + C LC F+ SLK+HIR +HT V C +C
Sbjct: 72 ISQFVCPLCLMPFSSSVSLKQHIR------YTEHTKV------------------CPVCK 107
Query: 111 KSFTRKDS-----LKKHN 123
K FT DS KKHN
Sbjct: 108 KEFTSTDSALDHVCKKHN 125
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 29.6 bits (65), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 27/70 (38%), Gaps = 22/70 (31%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C C K F+R L +H R+ HT +P +C C K+F++
Sbjct: 17 CVECGKAFSRSSILVQHQRV-HTGEKP---------------------YKCLECGKAFSQ 54
Query: 116 KDSLKKHNRI 125
L H RI
Sbjct: 55 NSGLINHQRI 64
>pdb|2YTB|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 5 In
Zinc Finger Protein 32
Length = 42
Score = 29.3 bits (64), Expect = 1.2, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 105 RCELCDKSFTRKDSLKKHNRIFHGGADP 132
RC+ C K+F++K SL H R+ H G+ P
Sbjct: 13 RCDQCGKAFSQKGSLIVHIRV-HTGSGP 39
Score = 27.3 bits (59), Expect = 3.9, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C C K F++K SL HIR+ HT + P
Sbjct: 14 CDQCGKAFSQKGSLIVHIRV-HTGSGP 39
>pdb|2KFQ|A Chain A, Nmr Structure Of Fp1
Length = 32
Score = 28.9 bits (63), Expect = 1.5, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 18/38 (47%), Gaps = 10/38 (26%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALG 93
C C K F R D+L KHI+ T I VALG
Sbjct: 5 CPACPKRFMRSDALSKHIK----------TAFIVVALG 32
>pdb|2EPT|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 41
Score = 28.9 bits (63), Expect = 1.5, Method: Composition-based stats.
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C+ C KSF +K SL H RI H G+ P
Sbjct: 13 CQECGKSFRQKGSLTLHERI-HTGSGP 38
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 36/91 (39%), Gaps = 18/91 (19%)
Query: 59 CDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAF------IDRIR------- 105
CD+TF+ L H+ + H Q+ +V R +F ++ IR
Sbjct: 31 CDRTFSTMHELVTHVTMEHVGGPEQNNHVCYWEECPREGKSFKAKYKLVNHIRVHTGEKP 90
Query: 106 --CEL--CDKSFTRKDSLKKHNRIFHGGADP 132
C C K F R ++LK H R H G P
Sbjct: 91 FPCPFPGCGKIFARSENLKIHKRT-HTGEKP 120
>pdb|2EPP|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 278
Length = 66
Score = 28.5 bits (62), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 13/19 (68%)
Query: 54 IPCTLCDKTFTRKDSLKKH 72
+PC LC K FT + L++H
Sbjct: 14 LPCGLCGKVFTDANRLRQH 32
>pdb|2EQ4|A Chain A, Solution Structure Of The 11th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 224
Length = 46
Score = 28.5 bits (62), Expect = 1.9, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C+ C KSF+R L KH R+ H G P
Sbjct: 15 CKECGKSFSRAPCLLKHERL-HSGEKP 40
>pdb|1ARD|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 106 CELCDKSFTRKDSLKKHNR 124
CE+C ++F R++ LK+H R
Sbjct: 5 CEVCTRAFARQEHLKRHYR 23
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 28.5 bits (62), Expect = 2.0, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 17/28 (60%), Gaps = 1/28 (3%)
Query: 105 RCELCDKSFTRKDSLKKHNRIFHGGADP 132
RC C K+F +K +L +H RI H G P
Sbjct: 14 RCGECGKAFAQKANLTQHQRI-HTGEKP 40
>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 = 2.0, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C +C KSFT+K L H +I H G P
Sbjct: 15 CSICGKSFTKKSQLHVHQQI-HTGEKP 40
Score = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C++C K+FT+K L H +I HT +P
Sbjct: 15 CSICGKSFTKKSQLHVHQQI-HTGEKP 40
>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 = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
CT+C K FT + +L KH +I HT +P
Sbjct: 15 CTVCGKAFTDRSNLIKHQKI-HTGEKP 40
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C +C K+FT + +L KH +I H G P
Sbjct: 15 CTVCGKAFTDRSNLIKHQKI-HTGEKP 40
>pdb|1ZNF|A Chain A, Three-Dimensional Solution Structure Of A Single Zinc
Finger Dna-Binding Domain
Length = 27
Score = 28.5 bits (62), Expect = 2.0, Method: Composition-based stats.
Identities = 9/21 (42%), Positives = 15/21 (71%)
Query: 105 RCELCDKSFTRKDSLKKHNRI 125
+C LC++SF K +L +H R+
Sbjct: 3 KCGLCERSFVEKSALSRHQRV 23
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2 Domains
Of Zinc Finger Protein 692
Length = 78
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 28/74 (37%), Gaps = 19/74 (25%)
Query: 54 IPCTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSF 113
+ C +C T +K SL H R +H + AL R CE C K F
Sbjct: 8 LQCEICGFTCRQKASLNWHQR--------KHAETV-AAL----------RFPCEFCGKRF 48
Query: 114 TRKDSLKKHNRIFH 127
+ DS+ H H
Sbjct: 49 EKPDSVAAHRSKSH 62
>pdb|2EML|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
752- 784) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 28.1 bits (61), Expect = 2.3, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C +C K+F+ + SL H RI H G P
Sbjct: 15 CSVCGKAFSHRQSLSVHQRI-HSGKKP 40
>pdb|2EL5|A Chain A, Solution Structure Of The 18th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 42
Score = 28.1 bits (61), Expect = 2.3, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C C K+F RKD L H R G + P
Sbjct: 13 CSECGKAFNRKDQLISHQRTHAGESGP 39
>pdb|1ARE|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 28.1 bits (61), Expect = 2.4, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 16/19 (84%)
Query: 106 CELCDKSFTRKDSLKKHNR 124
CE+C ++F R+++LK+H R
Sbjct: 5 CEVCTRAFARQEALKRHYR 23
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 28.1 bits (61), Expect = 2.6, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 105 RCELCDKSFTRKDSLKKHNRIFHGGADP 132
+C+ C KSF+++ SL H R+ H G+ P
Sbjct: 12 QCKECGKSFSQRGSLAVHERL-HTGSGP 38
>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 = 27.7 bits (60), Expect = 2.8, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 23/52 (44%)
Query: 26 SVENSTSVENTSSVDNRTSVGPVVPIDRIPCTLCDKTFTRKDSLKKHIRIFH 77
+V N+T S V P+V C +C+ F+ +L +H+R H
Sbjct: 89 AVANATKPAAVVSDPQSMKVTPIVNPSSYVCNVCNARFSTMSALSEHLRSDH 140
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 27.7 bits (60), Expect = 2.8, Method: Composition-based stats.
Identities = 14/52 (26%), Positives = 23/52 (44%)
Query: 26 SVENSTSVENTSSVDNRTSVGPVVPIDRIPCTLCDKTFTRKDSLKKHIRIFH 77
+V N+T S V P+V C +C+ F+ +L +H+R H
Sbjct: 71 AVANATKPAAVVSDPQSMKVTPIVNPSSYVCNVCNARFSTMSALSEHLRSDH 122
>pdb|2EOS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
626- 654) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 27.7 bits (60), Expect = 3.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 55 PCTLCDKTFTRKDSLKKHIRIFHTQNQP 82
PC +C F +LK H+RI HT + P
Sbjct: 13 PCEICGTRFRHLQTLKSHLRI-HTGSGP 39
Score = 26.2 bits (56), Expect = 9.5, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
CE+C F +LK H RI H G+ P
Sbjct: 14 CEICGTRFRHLQTLKSHLRI-HTGSGP 39
>pdb|2EN9|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
415- 447) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 16/29 (55%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+C C K+FT+ SL H RI H G P
Sbjct: 13 FKCNECKKTFTQSSSLTVHQRI-HTGEKP 40
Score = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C C KTFT+ SL H RI HT +P
Sbjct: 15 CNECKKTFTQSSSLTVHQRI-HTGEKP 40
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/67 (26%), Positives = 25/67 (37%), Gaps = 22/67 (32%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C +C K F K L H++I HT +P C +C K F
Sbjct: 40 CGVCGKKFKMKHHLVGHMKI-HTGIKP---------------------YECNICAKRFMW 77
Query: 116 KDSLKKH 122
+DS +H
Sbjct: 78 RDSFHRH 84
>pdb|1ARF|A Chain A, Structures Of Dna-Binding Mutant Zinc Finger Domains:
Implications For Dna Binding
Length = 29
Score = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 9/19 (47%), Positives = 15/19 (78%)
Query: 106 CELCDKSFTRKDSLKKHNR 124
CE+C ++F R++ LK+H R
Sbjct: 5 CEVCTRAFARQEYLKRHYR 23
>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 = 27.3 bits (59), Expect = 3.7, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C C K+F RK +L H RI H G P
Sbjct: 15 CSECGKAFARKSTLIMHQRI-HTGEKP 40
Score = 26.9 bits (58), Expect = 4.9, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 16/27 (59%), Gaps = 1/27 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C+ C K F RK +L H RI HT +P
Sbjct: 15 CSECGKAFARKSTLIMHQRI-HTGEKP 40
>pdb|2EN1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
563- 595) Of Human Zinc Finger Protein 224
Length = 46
Score = 27.3 bits (59), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+CE C K FT+ L H R+ H G P
Sbjct: 13 FKCEECGKRFTQNSQLHSHQRV-HTGEKP 40
>pdb|2EP0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
528- 560) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 27.3 bits (59), Expect = 4.1, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 105 RCELCDKSFTRKDSLKKHNRIFHGGADP 132
+C++C KSF SL H RI H G P
Sbjct: 14 KCDVCHKSFRYGSSLTVHQRI-HTGEKP 40
>pdb|2YTS|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
715- 747) Of Human Zinc Finger Protein 484
Length = 46
Score = 27.3 bits (59), Expect = 4.4, Method: Composition-based stats.
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C C KSF +K L +H RI H G P
Sbjct: 15 CNECGKSFIQKSHLNRHRRI-HTGEKP 40
>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 = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 22/74 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C++C +TF R+ L+ H+ + HT P +C C + F +
Sbjct: 69 CSVCQETFRRRMELRLHM-VSHTGEMP---------------------YKCSSCSQQFMQ 106
Query: 116 KDSLKKHNRIFHGG 129
K L+ H H G
Sbjct: 107 KKDLQSHMIKLHSG 120
>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 = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 30/77 (38%), Gaps = 23/77 (29%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQPQHTNVIEVALGARANAAFIDRIRCELCDKSFTR 115
C C + FT+ +L H R HT +P C++C K+F R
Sbjct: 20 CKFCGRHFTKSYNLLIHERT-HTDERP---------------------YTCDICHKAFRR 57
Query: 116 KDSLKKHNRIFHGGADP 132
+D L+ H R H P
Sbjct: 58 QDHLRDH-RYIHSKEKP 73
>pdb|2EMA|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
312- 344) Of Human Zinc Finger Protein 347
Length = 46
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 103 RIRCELCDKSFTRKDSLKKHNRIFHGGADP 132
R +C C K F+R L +H +I H G P
Sbjct: 12 RYKCNECGKVFSRNSQLSQHQKI-HTGEKP 40
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 53 RIPCTLCDKTFTRKDSLKKHIRIFHTQNQP 82
R C C K F+R L +H +I HT +P
Sbjct: 12 RYKCNECGKVFSRNSQLSQHQKI-HTGEKP 40
>pdb|2M0F|A Chain A, Solution Structure Of Miz-1 Zinc Finger 7
Length = 29
Score = 27.3 bits (59), Expect = 4.5, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHG 128
++C C K FT +LK+H RI G
Sbjct: 3 LKCRECGKQFTTSGNLKRHLRIHSG 27
>pdb|1UF4|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase
pdb|1UF4|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase
pdb|1UF5|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Methionine
pdb|1UF5|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Methionine
pdb|1UF7|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Valine
pdb|1UF7|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Valine
pdb|1UF8|A Chain A, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Phenylalanine
pdb|1UF8|B Chain B, Crystal Structure Of C171aV236A MUTANT OF N-Carbamyl-D-
Amino Acid Amidohydrolase Complexed With N-Carbamyl-D-
Phenylalanine
Length = 303
Score = 27.3 bits (59), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 7/87 (8%)
Query: 9 NHFVSGKKNSTSVENSTSVENSTSVE-NTSSVDNRTSVGPVVPIDRIPCTLCDKTFT--- 64
+H +S + S ++ +E N + + V P I + TL D+ T
Sbjct: 214 HHLLSMQAGSYQNGAWSAAAGKAGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAV 273
Query: 65 ---RKDSLKKHIRIFHTQNQPQHTNVI 88
R L++HI F QPQH +I
Sbjct: 274 DLDRCRELREHIFNFKQHRQPQHYGLI 300
>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 = 27.3 bits (59), Expect = 4.6, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C++C K+F+ SL +H R+ H G P
Sbjct: 15 CDVCRKAFSHHASLTQHQRV-HSGEKP 40
>pdb|1ERZ|A Chain A, Crystal Structure Of N-Carbamyl-D-Amino Acid
Amidohydrolase With A Novel Catalytic Framework Common
To Amidohydrolases
pdb|1ERZ|B Chain B, Crystal Structure Of N-Carbamyl-D-Amino Acid
Amidohydrolase With A Novel Catalytic Framework Common
To Amidohydrolases
Length = 303
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 35/87 (40%), Gaps = 7/87 (8%)
Query: 9 NHFVSGKKNSTSVENSTSVENSTSVE-NTSSVDNRTSVGPVVPIDRIPCTLCDKTFT--- 64
+H +S + S ++ +E N + + V P I + TL D+ T
Sbjct: 214 HHLLSMQAGSYQNGAWSAAAGKVGMEENCMLLGHSCIVAPTGEIVALTTTLEDEVITAAV 273
Query: 65 ---RKDSLKKHIRIFHTQNQPQHTNVI 88
R L++HI F QPQH +I
Sbjct: 274 DLDRCRELREHIFNFKQHRQPQHYGLI 300
>pdb|2YTH|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
479- 511) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 15/29 (51%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+CE C K FT+ L H R+ H G P
Sbjct: 13 FQCEECGKRFTQNSHLHSHQRV-HTGEKP 40
>pdb|2EOJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
355- 385) Of Human Zinc Finger Protein 268
Length = 44
Score = 26.9 bits (58), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQP 82
C C K F+RKD L H + Q+ P
Sbjct: 15 CCECGKVFSRKDQLVSHQKTHSGQSGP 41
>pdb|1SP2|A Chain A, Nmr Structure Of A Zinc Finger Domain From Transcription
Factor Sp1f2, Minimized Average Structure
pdb|1VA2|A Chain A, Solution Structure Of Transcription Factor Sp1 Dna Binding
Domain (Zinc Finger 2)
Length = 31
Score = 26.6 bits (57), Expect = 7.8, Method: Composition-based stats.
Identities = 10/20 (50%), Positives = 12/20 (60%)
Query: 109 CDKSFTRKDSLKKHNRIFHG 128
C K FTR D L++H R G
Sbjct: 10 CGKRFTRSDELQRHKRTHTG 29
>pdb|1P7A|A Chain A, Solution Stucture Of The Third Zinc Finger From Bklf
Length = 37
Score = 26.2 bits (56), Expect = 8.3, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 93 GARANAAFIDRIRCELCDKSFTRKDSLKKHNR 124
G+ + I +C CD+SF+R D L H +
Sbjct: 1 GSTRGSTGIKPFQCPDCDRSFSRSDHLALHRK 32
>pdb|2EOR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
255- 287) Of Human Zinc Finger Protein 224
Length = 46
Score = 26.2 bits (56), Expect = 8.4, Method: Composition-based stats.
Identities = 12/27 (44%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
CE C K+F L++H RI H G P
Sbjct: 15 CEECGKAFIHDSQLQEHQRI-HTGEKP 40
>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 = 26.2 bits (56), Expect = 8.5, Method: Composition-based stats.
Identities = 11/27 (40%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C++C K+FT+K L +H + H G P
Sbjct: 15 CKVCSKAFTQKAHLAQHQKT-HTGEKP 40
>pdb|2EP1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
435- 467) Of Human Zinc Finger Protein 484
Length = 46
Score = 26.2 bits (56), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 15/27 (55%), Gaps = 1/27 (3%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C C KSF +K L H RI H G +P
Sbjct: 15 CSDCGKSFIKKSQLHVHQRI-HTGENP 40
>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 = 26.2 bits (56), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGGADP 132
+C++C K F++ L+ H R+ H G P
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRV-HTGEKP 40
>pdb|1XF7|A Chain A, High Resolution Nmr Structure Of The Wilms' Tumor
Suppressor Protein (Wt1) Finger 3
Length = 29
Score = 26.2 bits (56), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHG 128
+C+ C + F+R D LK H R G
Sbjct: 3 FQCKTCQRKFSRSDHLKTHTRTHTG 27
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 26.2 bits (56), Expect = 9.7, Method: Composition-based stats.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 106 CELCDKSFTRKDSLKKHNRIFHGGADP 132
C+ C K+FT+ L H R+ G + P
Sbjct: 13 CQECGKAFTQSSCLSIHRRVHTGESGP 39
>pdb|2ELS|A Chain A, Solution Structure Of The 2nd C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 26.2 bits (56), Expect = 9.8, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 56 CTLCDKTFTRKDSLKKHIRIFHTQNQ 81
C C+K F K SL+ H+RI HT +
Sbjct: 12 CEYCNKVFKFKHSLQAHLRI-HTNEK 36
>pdb|2YU8|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
648- 680) Of Human Zinc Finger Protein 347
Length = 46
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 14/26 (53%)
Query: 104 IRCELCDKSFTRKDSLKKHNRIFHGG 129
+C C K FT+ L +H R+ GG
Sbjct: 13 YKCNECGKVFTQNSHLARHRRVHTGG 38
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 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,511,915
Number of Sequences: 62578
Number of extensions: 161825
Number of successful extensions: 683
Number of sequences better than 100.0: 95
Number of HSP's better than 100.0 without gapping: 68
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 466
Number of HSP's gapped (non-prelim): 180
length of query: 167
length of database: 14,973,337
effective HSP length: 92
effective length of query: 75
effective length of database: 9,216,161
effective search space: 691212075
effective search space used: 691212075
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: 48 (23.1 bits)