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= psy12265
(71 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 = 55.5 bits (132), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L+ H R H G KPY C CG+ F Q L+ H+ + H+ K ++C CGK F+R+ H+
Sbjct: 93 LRAHQRTHTGEKPYACPECGKSFSQLAHLRAHQRT-HTGEKPYKCPECGKSFSREDNLHT 151
Query: 67 YHQI 70
+ +
Sbjct: 152 HQRT 155
Score = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 35/59 (59%), Gaps = 1/59 (1%)
Query: 3 KFTYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
+ +L+ H R H G KPY C CG+ F + +L H+ + H+ K ++C CGK F+R+
Sbjct: 117 QLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQRT-HTGEKPYKCPECGKSFSRR 174
Score = 48.9 bits (115), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 22/54 (40%), Positives = 31/54 (57%), Gaps = 1/54 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
L H R H G KPY C CG+ F Q +L+ H+ + H+ K + C CGK F++
Sbjct: 65 LTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRT-HTGEKPYACPECGKSFSQ 117
Score = 48.5 bits (114), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 22/56 (39%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
+L H R H G KPY C CG+ F DL H+ + H+ K ++C CGK F+++
Sbjct: 36 HLAEHQRTHTGEKPYKCPECGKSFSDKKDLTRHQRT-HTGEKPYKCPECGKSFSQR 90
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 13 VHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
+ G KPY C CG+ F + L H+ + H+ K ++C CGK F+ K
Sbjct: 15 LEPGEKPYACPECGKSFSRSDHLAEHQRT-HTGEKPYKCPECGKSFSDK 62
>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 = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 34/56 (60%), Gaps = 1/56 (1%)
Query: 5 TYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
+ L+ H R H G KPY C CG+ F Q DL+ H+ + H+ K ++C CGK F+R
Sbjct: 18 SNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRT-HTGEKPYKCPECGKSFSR 72
Score = 39.7 bits (91), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
KPY C CG+ F Q +L+ H+ + H+ K ++C CGK F++
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRT-HTGEKPYKCPECGKSFSQ 44
Score = 33.5 bits (75), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHK 39
L+ H R H G KPY C CG+ F + L H+
Sbjct: 48 LQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQ 80
>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 = 51.6 bits (122), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 5 TYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 59
T L H R+H G KP+ C +C R+F Q L H H+ K F C+ CG+ FA
Sbjct: 20 TNLDTHIRIHTGQKPFQCRICMRNFSQQASLNAH-IRTHTGEKPFACDICGRKFA 73
Score = 35.8 bits (81), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 29/52 (55%), Gaps = 3/52 (5%)
Query: 18 KPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHSY 67
+PY C V C R F Q +L H +H+ K FQC C ++F+++ +++
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFSQQASLNAH 53
>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 = 49.3 bits (116), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 30/55 (54%), Gaps = 1/55 (1%)
Query: 5 TYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 59
T L H R+H G KP+ C +C R+F Q L H H+ K F C+ CG+ FA
Sbjct: 20 TNLDTHIRIHTGQKPFQCRICMRNFSQHTGLNQH-IRTHTGEKPFACDICGRKFA 73
Score = 35.0 bits (79), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 18 KPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 59
+PY C V C R F Q +L H +H+ K FQC C ++F+
Sbjct: 3 RPYACPVESCDRRFSQKTNLDTH-IRIHTGQKPFQCRICMRNFS 45
>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 = 48.1 bits (113), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 25/60 (41%), Positives = 37/60 (61%), Gaps = 3/60 (5%)
Query: 3 KFTYLKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
K ++L++H+R H G KPY C+ C R F + LK H+ H+ VK FQC+ C + F+R
Sbjct: 20 KLSHLQMHSRKHTGEKPYQCDFKDCERRFSRSDQLKRHQRR-HTGVKPFQCKTCQRKFSR 78
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 34/66 (51%), Gaps = 3/66 (4%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEY--CGKDFARKYQA 64
LK H R H G+KP+ C+ C R F + LK H H+ K F C + C K FAR +
Sbjct: 54 LKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTH-TRTHTGEKPFSCRWPSCQKKFARSDEL 112
Query: 65 HSYHQI 70
+H +
Sbjct: 113 VRHHNM 118
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%), Gaps = 2/35 (5%)
Query: 6 YLKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYH 38
+LK H R H G KP+ C C + F + +L H
Sbjct: 81 HLKTHTRTHTGEKPFSCRWPSCQKKFARSDELVRH 115
>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 = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 5 TYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQA 64
+ L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 20 SNLTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDER 78
Query: 65 HSYHQI 70
+ +I
Sbjct: 79 KRHTKI 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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 80
Query: 67 YHQI 70
+ +I
Sbjct: 81 HTKI 84
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 49 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 80
Query: 67 YHQI 70
+ +I
Sbjct: 81 HTKI 84
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 49 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 80
Query: 67 YHQI 70
+ +I
Sbjct: 81 HTKI 84
Score = 37.0 bits (84), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 49 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>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 = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 21 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 79
Query: 67 YHQI 70
+ +I
Sbjct: 80 HTKI 83
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 48 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 80
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 80
Query: 67 YHQI 70
+ +I
Sbjct: 81 HTKI 84
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 49 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 47.4 bits (111), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 34/64 (53%), Gaps = 1/64 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHS 66
L H R+H G KP+ C +C R+F + L H H+ K F C+ CG+ FAR +
Sbjct: 22 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH-IRTHTGEKPFACDICGRKFARSDERKR 80
Query: 67 YHQI 70
+ +I
Sbjct: 81 HTKI 84
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+L H R H G KP+ C++CGR F + + K H
Sbjct: 49 HLTTHIRTHTGEKPFACDICGRKFARSDERKRH 81
>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 = 46.6 bits (109), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
L +H R H +PY C++C + FR+ L+ H+ +HS K F+C+ CGK F
Sbjct: 33 LLIHERTHTDERPYTCDICHKAFRRQDHLRDHRY-IHSKEKPFKCQECGKGF 83
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
K + C+ CGRHF + +L H+ + H+D + + C+ C K F R+
Sbjct: 16 KEFICKFCGRHFTKSYNLLIHERT-HTDERPYTCDICHKAFRRQ 58
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 19/35 (54%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKA 40
+L+ H +H KP+ C+ CG+ F Q L HK
Sbjct: 60 HLRDHRYIHSKEKPFKCQECGKGFCQSRTLAVHKT 94
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2
Domains Of Human Zinc Finger Protein 297b
Length = 110
Score = 46.2 bits (108), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/49 (42%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 10 HNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
H +HLGL+PYGC VCG+ F+ L H +H+ +K ++C C K F
Sbjct: 28 HMSMHLGLRPYGCGVCGKKFKMKHHLVGH-MKIHTGIKPYECNICAKRF 75
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 18/29 (62%), Gaps = 1/29 (3%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGD 34
+L H ++H G+KPY C +C + F W D
Sbjct: 52 HLVGHMKIHTGIKPYECNICAKRF-MWRD 79
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 34/59 (57%), Gaps = 1/59 (1%)
Query: 2 EKFTYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
++ + L H +H +PY C+ CG+ F Q D+K H +H+ K +C+ CGK F++
Sbjct: 12 KRSSTLSTHLLIHSDTRPYPCQYCGKRFHQKSDMKKH-TFIHTGEKPHKCQVCGKAFSQ 69
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
+ C++CG+ F++ L H +HSD + + C+YCGK F +K
Sbjct: 2 FDCKICGKSFKRSSTLSTHLL-IHSDTRPYPCQYCGKRFHQK 42
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 20/32 (62%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
+K H +H G KP+ C+VCG+ F Q +L H
Sbjct: 45 MKKHTFIHTGEKPHKCQVCGKAFSQSSNLITH 76
>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 = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKA--SLHSDVKAFQCEYCGKDFARKYQ 63
YLKVHNR H G KP+ C CG+ + + +L H+A ++ + F C C + F R+ +
Sbjct: 22 YLKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRME 81
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
L++H H G PY C C + F Q DL+ H LHS +
Sbjct: 82 LRLHMVSHTGEMPYKCSSCSQQFMQKKDLQSHMIKLHSGPSS 123
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 42.7 bits (99), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 23/56 (41%), Positives = 30/56 (53%), Gaps = 1/56 (1%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDV-KAFQCEYCGKDFAR 60
+L H H G KPY C VCG F++ + YH S V K + C+ CGK F+R
Sbjct: 22 HLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGKGFSR 77
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 27/53 (50%), Gaps = 2/53 (3%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHSYH 68
G CE+CG+ FR L HK S HS K + C CG F RK + SYH
Sbjct: 4 GSSGVACEICGKIFRDVYHLNRHKLS-HSGEKPYSCPVCGLRFKRKDRM-SYH 54
>pdb|2CT1|A Chain A, Solution Structure Of The Zinc Finger Domain Of
Transcriptional Repressor Ctcf Protein
Length = 77
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 26/52 (50%), Gaps = 1/52 (1%)
Query: 11 NRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHS-DVKAFQCEYCGKDFARK 61
R H G KPY C +C F Q G +K H H+ +V F C +C ARK
Sbjct: 7 GRTHSGEKPYECYICHARFTQSGTMKMHILQKHTENVAKFHCPHCDTVIARK 58
>pdb|2EBT|A Chain A, Solution Structure Of Three Tandem Repeats Of Zf-C2h2
Domains From Human Kruppel-Like Factor 5
Length = 100
Score = 40.0 bits (92), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 31/60 (51%), Gaps = 3/60 (5%)
Query: 3 KFTYLKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
K ++LK H R H G KPY C E C F + +L H H+ K FQC C + F+R
Sbjct: 29 KSSHLKAHLRTHTGEKPYKCTWEGCDWRFARSDELTRHYRK-HTGAKPFQCGVCNRSFSR 87
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 16/32 (50%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
L H R H G KP+ C VC R F + L H
Sbjct: 63 LTRHYRKHTGAKPFQCGVCNRSFSRSDHLALH 94
>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 = 40.0 bits (92), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 1/54 (1%)
Query: 17 LKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHSYHQI 70
+KP+ C +C R+F + L H + H+ K F C+ CG+ FAR + + I
Sbjct: 1 MKPFQCRICMRNFSRSDHLTTHIRT-HTGEKPFACDICGRKFARSDERKRHRDI 53
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 22/38 (57%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLH 43
+L H R H G KP+ C++CGR F + + K H+ H
Sbjct: 18 HLTTHIRTHTGEKPFACDICGRKFARSDERKRHRDIQH 55
>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 = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 31/62 (50%), Gaps = 3/62 (4%)
Query: 1 MEKFTYLKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
ME + N V ++PY C V C R F + +L H +H+ K FQC C ++F
Sbjct: 1 MEPHPMNNLLNYVVPKMRPYACPVESCDRRFSRSDELTRH-IRIHTGQKPFQCRICMRNF 59
Query: 59 AR 60
+R
Sbjct: 60 SR 61
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
L H R+H G KP+ C +C R+F + L H
Sbjct: 37 LTRHIRIHTGQKPFQCRICMRNFSRSDHLTTH 68
>pdb|2DMD|A Chain A, Solution Structure Of The N-Terminal C2h2 Type
Zinc-Binding Domain Of The Zinc Finger Protein 64,
Isoforms 1 And 2
Length = 96
Score = 39.3 bits (90), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYC 54
LK H R H G+KPY C+ C L H +HSD + F+C+ C
Sbjct: 24 LKTHMRCHTGVKPYKCKTCDYAAADSSSLNKH-LRIHSDERPFKCQIC 70
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 3/41 (7%)
Query: 19 PYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 59
P+ CEVCG+ F + LK H H+ VK ++C+ C D+A
Sbjct: 8 PHKCEVCGKCFSRKDKLKTH-MRCHTGVKPYKCKTC--DYA 45
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 29/53 (54%), Gaps = 1/53 (1%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHSYHQI 70
KPY C+ C FR G+L HK ++H+ K ++C CG F R ++ +I
Sbjct: 16 KPYKCDRCQASFRYKGNLASHK-TVHTGEKPYRCNICGAQFNRPANLKTHTRI 67
Score = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
L H VH G KPY C +CG F + +LK H +HS K
Sbjct: 33 LASHKTVHTGEKPYRCNICGAQFNRPANLKTH-TRIHSGEKP 73
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/53 (43%), Positives = 31/53 (58%), Gaps = 3/53 (5%)
Query: 7 LKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKD 57
L H RVH G KP+ C CG+ F + +LK HK + H+ K F+CE+ G D
Sbjct: 78 LVNHIRVHTGEKPFPCPFPGCGKIFARSENLKIHKRT-HTGEKPFKCEFEGCD 129
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 18/34 (52%), Gaps = 2/34 (5%)
Query: 7 LKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYH 38
LK+H R H G KP+ CE C R F D K H
Sbjct: 108 LKIHKRTHTGEKPFKCEFEGCDRRFANSSDRKKH 141
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 89
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 3 KFTYLKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
K ++LK H R H G KPY C+ CG F + +L H H+ + FQC+ C + F+R
Sbjct: 19 KSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK-HTGHRPFQCQKCDRAFSR 77
Score = 25.0 bits (53), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 16/32 (50%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
L H R H G +P+ C+ C R F + L H
Sbjct: 53 LTRHYRKHTGHRPFQCQKCDRAFSRSDHLALH 84
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Transcriptional Repressor Ctcf
Length = 86
Score = 38.1 bits (87), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 24/53 (45%), Gaps = 3/53 (5%)
Query: 12 RVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSD---VKAFQCEYCGKDFARK 61
R H G KPY C C + FRQ L H H AF C CGK F R+
Sbjct: 8 RTHTGEKPYACSHCDKTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRR 60
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4
Bound To Its Target Dna
Length = 90
Score = 37.7 bits (86), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 3/60 (5%)
Query: 3 KFTYLKVHNRVHLGLKPYGCEV--CGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFAR 60
K ++LK H R H G KPY C+ CG F + +L H H+ + FQC+ C + F+R
Sbjct: 20 KSSHLKAHLRTHTGEKPYHCDWDGCGWKFARSDELTRHYRK-HTGHRPFQCQKCDRAFSR 78
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 26/55 (47%), Gaps = 2/55 (3%)
Query: 3 KFTYLKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCG 55
+ LK H R H G KPY C E C + F D H+ HS+ K + C+ G
Sbjct: 81 RLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKHQNRTHSNEKPYVCKLPG 135
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 31/57 (54%), Gaps = 5/57 (8%)
Query: 7 LKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHKASLHSDVKAFQCEY--CGKDFA 59
L VH R H G KP+ C E C + + + +LK H S H+ K + CE+ C K F+
Sbjct: 55 LVVHMRRHTGEKPHKCTFEGCRKSYSRLENLKTHLRS-HTGEKPYMCEHEGCSKAFS 110
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain
Of Human Zinc Finger Protein 24
Length = 72
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
KPYGC CG+ F + L H+ +H+ K ++C CGK F++
Sbjct: 13 KPYGCVECGKAFSRSSILVQHQ-RVHTGEKPYKCLECGKAFSQN 55
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 20/37 (54%)
Query: 3 KFTYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHK 39
+ + L H RVH G KPY C CG+ F Q L H+
Sbjct: 26 RSSILVQHQRVHTGEKPYKCLECGKAFSQNSGLINHQ 62
>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 = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 18/33 (54%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
YL +H R H G KPY CE C Q L+YH
Sbjct: 19 YLNIHLRTHTGEKPYKCEFCEYAAAQKTSLRYH 51
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 34.3 bits (77), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 29/51 (56%), Gaps = 1/51 (1%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQAHSYHQI 70
Y C+ CG+ F DL H+ + H+ K ++C+ CGK F ++ +H++
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRT-HTGEKPYKCDECGKAFIQRSHLIGHHRV 68
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
L H R H G KPY C+ CG+ F Q L H
Sbjct: 34 LSKHRRTHTGEKPYKCDECGKAFIQRSHLIGH 65
>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 = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 5/65 (7%)
Query: 7 LKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHKASLHSDVKAFQCEY--CGKDFARKY 62
LK H VH G KP+ C E CG+ F +L+ H +H+ + + C + C K FA+
Sbjct: 50 LKRHQLVHTGEKPFQCTFEGCGKRFSLDFNLRTH-VRIHTGDRPYVCPFDGCNKKFAQST 108
Query: 63 QAHSY 67
S+
Sbjct: 109 NLKSH 113
Score = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEY--CGKDFARKYQAHSYHQI 70
G + + C CG+ F + LK H+ +H+ K FQC + CGK F+ + ++ +I
Sbjct: 31 GPRVHVCAECGKAFVESSKLKRHQL-VHTGEKPFQCTFEGCGKRFSLDFNLRTHVRI 86
>pdb|2D9H|A Chain A, Solution Structure Of The Forth And Fifth Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 78
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 2/42 (4%)
Query: 22 CEVCGRHFRQWGDLKYHKASLHSDVKA--FQCEYCGKDFARK 61
CE+CG RQ L +H+ V A F CE+CGK F +
Sbjct: 10 CEICGFTCRQKASLNWHQRKHAETVAALRFPCEFCGKRFEKP 51
>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 = 33.1 bits (74), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHKASLHS-DVKAFQCEYCGKDFARK 61
G Y C+VC R + + H + H +VK + C +C K+F RK
Sbjct: 7 GEHTYRCKVCSRVYTHISNFCRHYVTSHKRNVKVYPCPFCFKEFTRK 53
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH 38
L H R HLG +P C CG+ FR ++ H
Sbjct: 20 LSRHRRAHLGYRPRSCPECGKCFRDQSEVNRH 51
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
+P+ C CG+ +R L H+ + H + C CGK F
Sbjct: 3 RPFFCNFCGKTYRDASGLSRHRRA-HLGYRPRSCPECGKCF 42
>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 = 32.0 bits (71), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 2 EKFTYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYH-KASLHS 44
+K + LK H R H ++PY C C F+ G+L H K+ HS
Sbjct: 12 KKPSMLKKHIRTHTDVRPYHCTYCNFSFKTKGNLTKHMKSKAHS 55
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
Y CE CG ++ LK H H+DV+ + C YC F K
Sbjct: 2 YICEECGIRXKKPSMLKKH-IRTHTDVRPYHCTYCNFSFKTK 42
>pdb|2EPA|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domains From Human Krueppel-Like Factor 10
Length = 72
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 3 KFTYLKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHK 39
K ++LK H R H G KP+ C + C R F + +L H+
Sbjct: 31 KSSHLKAHTRTHTGEKPFSCSWKGCERRFARSDELSRHR 69
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARK 61
+ CEVC R F + LK H S H++ K + C C + F R+
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRS-HTNEKPYPCGLCNRAFTRR 43
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%)
Query: 6 YLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHS 44
+LK H R H KPY C +C R F + L H +HS
Sbjct: 17 HLKRHYRSHTNEKPYPCGLCNRAFTRRDLLIRHAQKIHS 55
>pdb|1X5W|A Chain A, Solution Structure Of The C2h2 Type Zinc-Binding Domain
Of Human Zinc Finger Protein 64, Isoforms 1 And 2
Length = 70
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 20/42 (47%)
Query: 7 LKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
L++H R+H +P+ C C +Q +L H H D+
Sbjct: 25 LRIHERIHCTDRPFKCNYCSFDTKQPSNLSKHMKKFHGDMSG 66
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 13/21 (61%)
Query: 18 KPYGCEVCGRHFRQWGDLKYH 38
KPY CE+CG FR LK H
Sbjct: 10 KPYPCEICGTRFRHLQTLKSH 30
>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 = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 47 KAFQCEYCGKDFARKYQAHSYHQI 70
K ++C CGK F +K Q H + QI
Sbjct: 11 KPYECSICGKSFTKKSQLHVHQQI 34
Score = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KPY C +CG+ F + L H+
Sbjct: 11 KPYECSICGKSFTKKSQLHVHQ 32
>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 = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 47 KAFQCEYCGKDFARKYQAHSYHQI 70
K F+CE CGK F + Q HS+ ++
Sbjct: 11 KPFKCEECGKRFTQNSQLHSHQRV 34
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KP+ CE CG+ F Q L H+
Sbjct: 11 KPFKCEECGKRFTQNSQLHSHQ 32
>pdb|3IUF|A Chain A, Crystal Structure Of The C2h2-Type Zinc Finger Domain Of
Human Ubi-D4
Length = 48
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLH 43
KPY C++CG+ ++ L YH A H
Sbjct: 6 KPYACDICGKRYKNRPGLSYHYAHSH 31
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHK 39
G KPY C+ CG+ F Q G L H+
Sbjct: 7 GEKPYQCKECGKSFSQRGSLAVHE 30
>pdb|2EOG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
693- 723) Of Human Zinc Finger Protein 268
Length = 44
Score = 28.9 bits (63), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 10/16 (62%), Positives = 12/16 (75%)
Query: 16 GLKPYGCEVCGRHFRQ 31
G+KPYGC CG+ FR
Sbjct: 7 GVKPYGCSECGKAFRS 22
>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 = 28.5 bits (62), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 47 KAFQCEYCGKDFARKYQAHSYHQI 70
K FQCE CGK F + HS+ ++
Sbjct: 11 KPFQCEECGKRFTQNSHLHSHQRV 34
>pdb|1X4H|A Chain A, Solution Structure Of Rrm Domain In Rna-Binding Protein
28
Length = 111
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 23 EVCGRHFRQWGDLKYHKASLHSDVK 47
E G +Q+GDLKY + LH D +
Sbjct: 30 EALGEVLQQFGDLKYVRVVLHPDTE 54
>pdb|2LV2|A Chain A, Solution Nmr Structure Of C2h2-Type Zinc-Fingers 4 And 5
From Human Insulinoma-Associated Protein 1 (Fragment
424-497), Northeast Structural Genomics Consortium
Target Hr7614b
Length = 85
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 18/37 (48%), Gaps = 1/37 (2%)
Query: 22 CEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
C VCG F G + H LH+ + F C+YC F
Sbjct: 31 CPVCGESFASKGAQERHLRLLHA-AQVFPCKYCPATF 66
>pdb|2EOW|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
368- 400) Of Human Zinc Finger Protein 347
Length = 46
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKAS 41
KPY C CG+ FR L H+A+
Sbjct: 11 KPYKCNECGKAFRARSSLAIHQAT 34
>pdb|2EN6|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
887- 919) Of Human Zinc Finger Protein 268
Length = 46
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 13/22 (59%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KPYGC CG+ F Q L H+
Sbjct: 11 KPYGCNECGKTFSQKSILSAHQ 32
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of
Zinc Finger Protein 278
Length = 45
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 14/23 (60%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYH 38
G KPY C VCG F++ + YH
Sbjct: 7 GEKPYSCPVCGLRFKRKDRMSYH 29
>pdb|2YTB|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 5 In
Zinc Finger Protein 32
Length = 42
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 18 KPYGCEVCGRHFRQWGDLKYH 38
KPY C+ CG+ F Q G L H
Sbjct: 10 KPYRCDQCGKAFSQKGSLIVH 30
>pdb|2EPT|A Chain A, Solution Structure Of The First C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 41
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHK 39
G + Y C+ CG+ FRQ G L H+
Sbjct: 7 GQRVYECQECGKSFRQKGSLTLHE 30
>pdb|2EN2|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
598- 626) Of Human B-Cell Lymphoma 6 Protein
Length = 42
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 18 KPYGCEVCGRHFRQWGDLKYH 38
KPY CE CG F Q L+ H
Sbjct: 10 KPYKCETCGARFVQVAHLRAH 30
>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 = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 28/65 (43%), Gaps = 2/65 (3%)
Query: 4 FTYLKVHNRVHLGLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFARKYQ 63
T L+ H +H K Y C C + F + + H+ + +QC CGK F YQ
Sbjct: 35 LTSLRRHFNIHSWEKKYPCRYCEKVF-PLAEYRTKHEIHHTGERRYQCLACGKSFI-NYQ 92
Query: 64 AHSYH 68
S H
Sbjct: 93 FMSSH 97
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 20 YGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDFA 59
Y C VC R + L+ H ++HS K + C YC K F
Sbjct: 23 YICIVCKRSYVCLTSLRRH-FNIHSWEKKYPCRYCEKVFP 61
>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 = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 47 KAFQCEYCGKDFARKYQAHSYHQI 70
K ++C CGK F +K Q H + +I
Sbjct: 11 KPYECSDCGKSFIKKSQLHVHQRI 34
>pdb|2EPS|A Chain A, Solution Structure Of The 4th Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 54
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/35 (31%), Positives = 19/35 (54%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKAFQCE 52
KPY C+ CG+ F + L H +H+ + +C+
Sbjct: 11 KPYICQSCGKGFSRPDHLNGHIKQVHTSERPHKCQ 45
>pdb|2EON|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
397- 429) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/27 (51%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHS 44
KPY C+VCG+ FR L H S+HS
Sbjct: 11 KPYKCQVCGKAFRVSSHLVQHH-SVHS 36
>pdb|2EM1|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
637- 667) Of Human Zinc Finger Protein 268
Length = 44
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
G KPY C CG+ F L HK +H+ VK
Sbjct: 7 GEKPYSCNECGKAFTFKSQLIVHKG-VHTGVKP 38
>pdb|2ELR|A Chain A, Solution Structure Of The 15th C2h2 Zinc Finger Of Human
Zinc Finger Protein 406
Length = 36
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 22 CEVCGRHFRQWGDLKYHK 39
C++CG+ F+ G LK HK
Sbjct: 12 CDMCGKKFKSKGTLKSHK 29
>pdb|2EQ1|A Chain A, Solution Structure Of The 9th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 26.2 bits (56), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 13/22 (59%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KPY C CG+ FR +L H+
Sbjct: 11 KPYKCNECGKAFRAHSNLTTHQ 32
>pdb|2LVU|A Chain A, Solution Structure Of Miz-1 Zinc Finger 10
Length = 26
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 12/21 (57%)
Query: 18 KPYGCEVCGRHFRQWGDLKYH 38
KPY CE CG+ F Q L H
Sbjct: 1 KPYVCERCGKRFVQSSQLANH 21
>pdb|2EL4|A Chain A, Solution Structure Of The 15th Zf-C2h2 Domain From Human
Zinc Finger Protein 268
Length = 46
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 17/32 (53%), Gaps = 1/32 (3%)
Query: 17 LKPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
+KPYGC C + F L H+ S H+ VK
Sbjct: 10 VKPYGCSQCAKTFSLKSQLIVHQRS-HTGVKP 40
>pdb|2YSV|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 17 In
Zinc Finger Protein 473
Length = 42
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 16 GLKPYGCEVCGRHFRQWGDLKYHK 39
G KPY C+ CG+ F Q L H+
Sbjct: 7 GEKPYVCQECGKAFTQSSCLSIHR 30
>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 = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 13/22 (59%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KP+ C+ C + FRQ L H+
Sbjct: 11 KPFRCDTCDKSFRQRSALNSHR 32
>pdb|2EPC|A Chain A, Solution Structure Of Zinc Finger Domain 7 In Zinc
Finger Protein 32
Length = 42
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 13/23 (56%)
Query: 19 PYGCEVCGRHFRQWGDLKYHKAS 41
PY C CG+ F Q G L H+ S
Sbjct: 11 PYLCGQCGKSFTQRGSLAVHQRS 33
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KP+ C CG+ FR G+L H+
Sbjct: 11 KPFECTHCGKSFRAKGNLVTHQ 32
>pdb|2DLK|A Chain A, Solution Structure Of The First And The Second Zf-C2h2
Domains Of Zinc Finger Protein 692
Length = 79
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 26/55 (47%), Gaps = 4/55 (7%)
Query: 6 YLKVHNRV-HLGLKPYGCE--VCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKD 57
YL H + H+ K + C CG+ F LK H LHSD + + CE+ G
Sbjct: 24 YLNHHKKYQHIHQKSFSCPEPACGKSFNFKKHLKEH-MKLHSDTRDYICEFSGPS 77
>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 = 25.8 bits (55), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 13/24 (54%)
Query: 17 LKPYGCEVCGRHFRQWGDLKYHKA 40
+KPY C CG+ F + L H+
Sbjct: 10 VKPYMCNECGKAFSVYSSLTTHQV 33
>pdb|2ELY|A Chain A, Solution Structure Of The Third Zf-C2h2 Domain From
Human Zinc Finger Protein 224
Length = 46
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 47 KAFQCEYCGKDFARKYQAHSYHQI 70
K F+C CGK F+R+ + +H++
Sbjct: 11 KPFKCVECGKGFSRRSALNVHHKL 34
>pdb|2EOE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
508- 540) Of Human Zinc Finger Protein 347
Length = 46
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%), Gaps = 1/31 (3%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHKASLHSDVKA 48
KPY C CG+ F Q L H+ +H+ VK
Sbjct: 11 KPYKCNECGKVFTQNSHLANHQ-RIHTGVKP 40
>pdb|1TF3|A Chain A, Tfiiia Finger 1-3 Bound To Dna, Nmr, 22 Structures
Length = 92
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 24/54 (44%), Gaps = 3/54 (5%)
Query: 7 LKVHNRVHLGLKPYGC--EVCGRHFRQWGDLKYHKASLHSDVKAFQCEYCGKDF 58
L+ H H G KP+ C E C + F L H + H+ K F C+ G D
Sbjct: 21 LQAHLSKHTGEKPFPCKEEGCEKGFTSLHHLTRHSLT-HTGEKNFTCDSDGCDL 73
>pdb|2EOZ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
809- 841) Of Human Zinc Finger Protein 473
Length = 46
Score = 25.4 bits (54), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 18 KPYGCEVCGRHFRQWGDLKYH 38
KPY C VCG+ F L H
Sbjct: 11 KPYSCNVCGKAFVLSAHLNQH 31
>pdb|2EMY|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
551- 583) Of Human Zinc Finger Protein 268
Length = 46
Score = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 12/16 (75%)
Query: 48 AFQCEYCGKDFARKYQ 63
++C CGK F+RKYQ
Sbjct: 12 PYECHECGKAFSRKYQ 27
>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 = 25.4 bits (54), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 9/16 (56%), Positives = 10/16 (62%)
Query: 16 GLKPYGCEVCGRHFRQ 31
G KPYGC CG+ F
Sbjct: 7 GEKPYGCNECGKDFSS 22
>pdb|2YTR|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
760- 792) Of Human Zinc Finger Protein 347
Length = 46
Score = 25.0 bits (53), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 18 KPYGCEVCGRHFRQWGDLKYHK 39
KPY C CG+ F Q L H+
Sbjct: 11 KPYKCNECGKAFSQTSKLARHQ 32
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
0.328 0.140 0.482
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,377,165
Number of Sequences: 62578
Number of extensions: 81042
Number of successful extensions: 651
Number of sequences better than 100.0: 119
Number of HSP's better than 100.0 without gapping: 110
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 347
Number of HSP's gapped (non-prelim): 262
length of query: 71
length of database: 14,973,337
effective HSP length: 41
effective length of query: 30
effective length of database: 12,407,639
effective search space: 372229170
effective search space used: 372229170
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)