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= psy12016
(111 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 = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ C C K + K+ L RH++ +KP + C CGK + + L H+R G+
Sbjct: 50 YKCPECGKSFSDKKDLTRHQRTHTGEKP------YKCPECGKSFSQRANLRAHQRTHTGE 103
Query: 80 EPKYECDQCPHRTKHISSLKKHMALKHG 107
+P Y C +C ++ L+ H G
Sbjct: 104 KP-YACPECGKSFSQLAHLRAHQRTHTG 130
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 7/88 (7%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ C C K + L H++ +KP + C CGK + KK L RH+R G+
Sbjct: 22 YACPECGKSFSRSDHLAEHQRTHTGEKP------YKCPECGKSFSDKKDLTRHQRTHTGE 75
Query: 80 EPKYECDQCPHRTKHISSLKKHMALKHG 107
+P Y+C +C ++L+ H G
Sbjct: 76 KP-YKCPECGKSFSQRANLRAHQRTHTG 102
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 32/69 (46%), Gaps = 7/69 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ C C K + L H++ +KP + C CGK + + L H+R G+
Sbjct: 106 YACPECGKSFSQLAHLRAHQRTHTGEKP------YKCPECGKSFSREDNLHTHQRTHTGE 159
Query: 80 EPKYECDQC 88
+P Y+C +C
Sbjct: 160 KP-YKCPEC 167
Score = 26.2 bits (56), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 26/60 (43%), Gaps = 6/60 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ C C K + + L H++ +KP + C CGK + + L H+R G+
Sbjct: 134 YKCPECGKSFSREDNLHTHQRTHTGEKP------YKCPECGKSFSRRDALNVHQRTHTGK 187
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 36.6 bits (83), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 28/62 (45%), Gaps = 6/62 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ CD C ++YK L HK +KP + C++CG + L H R G+
Sbjct: 18 YKCDRCQASFRYKGNLASHKTVHTGEKP------YRCNICGAQFNRPANLKTHTRIHSGE 71
Query: 80 EP 81
+P
Sbjct: 72 KP 73
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 51 DGLFSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKHG 107
D + CD C ++YK L HK G++P Y C+ C + ++LK H + G
Sbjct: 15 DKPYKCDRCQASFRYKGNLASHKTVHTGEKP-YRCNICGAQFNRPANLKTHTRIHSG 70
>pdb|2DLQ|A Chain A, Solution Structure Of The Tandem Four Zf-C2h2 Domain
Repeats Of Murine Gli-Kruppel Family Member Hkr3
Length = 124
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 4/91 (4%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C C K Y K L+ H+ +C + + +F+C VC + ++ + L H G+
Sbjct: 36 FECPKCGKCYFRKENLLEHEARNCMNRSEQ---VFTCSVCQETFRRRMELRLHMVSHTGE 92
Query: 80 EPKYECDQCPHRTKHISSLKKHMALKHGVES 110
P Y+C C + L+ HM H S
Sbjct: 93 MP-YKCSSCSQQFMQKKDLQSHMIKLHSGPS 122
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 36/95 (37%), Gaps = 8/95 (8%)
Query: 15 NDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKR 74
+ S C C K++ K L H + +KP F C CGK Y K+ L H+
Sbjct: 3 SGSSGVECPTCHKKFLSKYYLKVHNRKHTGEKP------FECPKCGKCYFRKENLLEHEA 56
Query: 75 YEC--GQEPKYECDQCPHRTKHISSLKKHMALKHG 107
C E + C C + L+ HM G
Sbjct: 57 RNCMNRSEQVFTCSVCQETFRRRMELRLHMVSHTG 91
>pdb|2COT|A Chain A, Solution Structure Of The First And Second Zf-C2h2
Domain Of Zinc Finger Protein 435
Length = 77
Score = 34.7 bits (78), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 23/35 (65%), Gaps = 1/35 (2%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQC 88
+ CD CGK + + L +H+R G++P Y+CD+C
Sbjct: 19 YKCDECGKSFSHSSDLSKHRRTHTGEKP-YKCDEC 52
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 6/68 (8%)
Query: 14 QNDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHK 73
Q + + CD C K + + L +H++ +KP + CD CGK + + L H
Sbjct: 13 QRERRRYKCDECGKSFSHSSDLSKHRRTHTGEKP------YKCDECGKAFIQRSHLIGHH 66
Query: 74 RYECGQEP 81
R G P
Sbjct: 67 RVHTGSGP 74
>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 = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 33/69 (47%), Gaps = 7/69 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
+ C C K + L +H++ +KP + C CGK + L +H+R G+
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTHTGEKP------YKCPECGKSFSQSSDLQKHQRTHTGE 58
Query: 80 EPKYECDQC 88
+P Y+C +C
Sbjct: 59 KP-YKCPEC 66
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 50 LDGLFSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKHG 107
++ + C CGK + L +H+R G++P Y+C +C S L+KH G
Sbjct: 1 MEKPYKCPECGKSFSQSSNLQKHQRTHTGEKP-YKCPECGKSFSQSSDLQKHQRTHTG 57
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 24/55 (43%), Gaps = 6/55 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKR 74
+ C C K + L +H++ +KP + C CGK + L RH+R
Sbjct: 33 YKCPECGKSFSQSSDLQKHQRTHTGEKP------YKCPECGKSFSRSDHLSRHQR 81
>pdb|4GZN|C Chain C, Mouse Zfp57 Zinc Fingers In Complex With Methylated Dna
Length = 60
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 27/51 (52%), Gaps = 1/51 (1%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMAL 104
F C+ CGK Y+ GL RH+R G P+ C +C + S + +H+ +
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRAHLGYRPR-SCPECGKCFRDQSEVNRHLKV 54
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 27/53 (50%), Gaps = 6/53 (11%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRH 72
F C+ C K Y+ GL RH++ +P+ SC CGK ++ + + RH
Sbjct: 5 FFCNFCGKTYRDASGLSRHRRAHLGYRPR------SCPECGKCFRDQSEVNRH 51
>pdb|1G2D|C Chain C, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(CLONE #2)
pdb|1G2D|F Chain F, Structure Of A Cys2his2 Zinc FingerTATA BOX COMPLEX
(CLONE #2)
Length = 90
Score = 33.5 bits (75), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + GL +H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSQHTGLNQHIRTHTGEKP------FACDICGRKFATLHTRDRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>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 = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 20/53 (37%), Positives = 27/53 (50%), Gaps = 1/53 (1%)
Query: 52 GLFSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMAL 104
G C+VCGK + K L H R G +P Y+C C + SSL KH+ +
Sbjct: 7 GPHKCEVCGKCFSRKDKLKTHMRCHTGVKP-YKCKTCDYAAADSSSLNKHLRI 58
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 14 QNDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHK 73
SG C+VC K + K L H + KP + C C L +H
Sbjct: 3 SGSSGPHKCEVCGKCFSRKDKLKTHMRCHTGVKP------YKCKTCDYAAADSSSLNKHL 56
Query: 74 RYECGQEPKYECDQCPHRTKHISSLKKHM 102
R + P ++C CP+ +++ S L H+
Sbjct: 57 RIHSDERP-FKCQICPYASRNSSQLTVHL 84
>pdb|2EE8|A Chain A, Solution Structure Of Three Zf-C2h2 Domains From Mouse
Protein Odd-Skipped-Related 2 Splicing Isoform 2
Length = 106
Score = 32.3 bits (72), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 28/59 (47%), Gaps = 6/59 (10%)
Query: 15 NDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHK 73
D +TCD+C K ++ + L H+ K+KP F C CGK + + L HK
Sbjct: 41 TDERPYTCDICHKAFRRQDHLRDHRYIHSKEKP------FKCQECGKGFCQSRTLAVHK 93
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C C + + L+ H++ ++P ++CD+C K ++ + L H RY +
Sbjct: 18 FICKFCGRHFTKSYNLLIHERTHTDERP------YTCDICHKAFRRQDHLRDH-RYIHSK 70
Query: 80 EPKYECDQC 88
E ++C +C
Sbjct: 71 EKPFKCQEC 79
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%), Gaps = 1/42 (2%)
Query: 47 PQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQC 88
P F C CG+H+ L H+R + P Y CD C
Sbjct: 11 PSKTKKEFICKFCGRHFTKSYNLLIHERTHTDERP-YTCDIC 51
>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 = 32.0 bits (71), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHK 73
F C +C + + L H + +KP F+CD+CG+ + RH+
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHR 51
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKH 106
F C +C +++ L H R G++P + CD C + K+H ++H
Sbjct: 4 FQCRICMRNFSRSDHLTTHIRTHTGEKP-FACDICGRKFARSDERKRHRDIQH 55
>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 = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 27/61 (44%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSQQASLNAHIRTHTGEKP------FACDICGRKFATLHTRTRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345
In Zinc Finger Protein 278
Length = 95
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 34/76 (44%), Gaps = 7/76 (9%)
Query: 14 QNDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHK 73
+ S C++C K ++ L RHK + +KP +SC VCG +K K + H
Sbjct: 2 SSGSSGVACEICGKIFRDVYHLNRHKLSHSGEKP------YSCPVCGLRFKRKDRMSYHV 55
Query: 74 RYECGQEPK-YECDQC 88
R G K Y C C
Sbjct: 56 RSHDGSVGKPYICQSC 71
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHM 102
+C++CGK ++ L RHK G++P Y C C R K + H+
Sbjct: 8 VACEICGKIFRDVYHLNRHKLSHSGEKP-YSCPVCGLRFKRKDRMSYHV 55
>pdb|2RPC|A Chain A, Solution Structure Of The Tandem Zf-C2h2 Domains From The
Human Zinc Finger Protein Zic 3
Length = 155
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/79 (35%), Positives = 37/79 (46%), Gaps = 9/79 (11%)
Query: 27 KEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDV--CGKHYKYKKGLGRHKRYECGQEP-KY 83
K +K K LV H + +KP F C CGK + + L HKR G++P K
Sbjct: 70 KSFKAKYKLVNHIRVHTGEKP------FPCPFPGCGKIFARSENLKIHKRTHTGEKPFKC 123
Query: 84 ECDQCPHRTKHISSLKKHM 102
E + C R + S KKHM
Sbjct: 124 EFEGCDRRFANSSDRKKHM 142
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 7/79 (8%)
Query: 25 CFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQEPKYE 84
C K + +K RH +P + C VCGK +K K L H + G +P YE
Sbjct: 15 CGKSFTHKSQRDRHMSMHLGLRP------YGCGVCGKKFKMKHHLVGHMKIHTGIKP-YE 67
Query: 85 CDQCPHRTKHISSLKKHMA 103
C+ C R S +H+
Sbjct: 68 CNICAKRFMWRDSFHRHVT 86
>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 = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>pdb|1A1I|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
pdb|1A1J|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gcgt
Site)
pdb|1A1K|A Chain A, Radr (Zif268 Variant) Zinc Finger-Dna Complex (Gacc
Site)
Length = 90
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac
Site)
Length = 90
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>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 = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>pdb|1JK1|A Chain A, Zif268 D20a Mutant Bound To Wt Dna Site
pdb|1JK2|A Chain A, Zif268 D20a Mutant Bound To The Gct Dna Site
Length = 90
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 6/61 (9%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 88
Query: 80 E 80
+
Sbjct: 89 K 89
>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 = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 25/60 (41%), Gaps = 6/60 (10%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C + + L H + +KP F+CD+CG+ + RH + Q
Sbjct: 34 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRHTKIHLRQ 87
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRH 72
F C +C + + L H + +KP F+CD+CG+ + RH
Sbjct: 35 FQCRICMRNFSRSDHLTTHIRTHTGEKP------FACDICGRKFARSDERKRH 81
>pdb|3IUF|A Chain A, Crystal Structure Of The C2h2-Type Zinc Finger Domain Of
Human Ubi-D4
Length = 48
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 48 QNLDGLFSCDVCGKHYKYKKGLGRH 72
++ D ++CD+CGK YK + GL H
Sbjct: 2 EDRDKPYACDICGKRYKNRPGLSYH 26
>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 = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 26/51 (50%), Gaps = 1/51 (1%)
Query: 56 CDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKH 106
C CGK ++ L H R G++P Y+C+ C + +SL+ H+ H
Sbjct: 7 CSYCGKFFRSNYYLNIHLRTHTGEKP-YKCEFCEYAAAQKTSLRYHLERHH 56
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 22/54 (40%), Gaps = 1/54 (1%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKHG 107
F C +CGK +K L H P Y C C R S +KKH + G
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRP-YPCQYCGKRFHQKSDMKKHTFIHTG 54
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 33/82 (40%), Gaps = 7/82 (8%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRHKRYECGQ 79
F C +C K +K L H +P + C CGK + K + +H G+
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSDTRP------YPCQYCGKRFHQKSDMKKHTFIHTGE 55
Query: 80 EPKYECDQCPHRTKHISSLKKH 101
+P ++C C S+L H
Sbjct: 56 KP-HKCQVCGKAFSQSSNLITH 76
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 17/67 (25%), Positives = 26/67 (38%), Gaps = 6/67 (8%)
Query: 12 VWQNDSGMFTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGR 71
+ +D+ + C C K + K + +H +KP C VCGK + L
Sbjct: 22 LIHSDTRPYPCQYCGKRFHQKSDMKKHTFIHTGEKPHK------CQVCGKAFSQSSNLIT 75
Query: 72 HKRYECG 78
H R G
Sbjct: 76 HSRKHTG 82
>pdb|2ADR|A Chain A, Adr1 Dna-Binding Domain From Saccharomyces Cerevisiae,
Nmr, 25 Structures
Length = 60
Score = 28.9 bits (63), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 26/53 (49%), Gaps = 6/53 (11%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQNLDGLFSCDVCGKHYKYKKGLGRH 72
F C+VC + + + L RH ++ +KP + C +C + + + L RH
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKP------YPCGLCNRAFTRRDLLIRH 49
Score = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQC 88
F C+VC + + ++ L RH R ++P Y C C
Sbjct: 3 FVCEVCTRAFARQEHLKRHYRSHTNEKP-YPCGLC 36
>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 = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C VCGK + +++ L H+R G++P
Sbjct: 13 YECSVCGKAFSHRQSLSVHQRIHSGKKP 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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ CDVC K ++Y L H+R G++P
Sbjct: 13 YKCDVCHKSFRYGSSLTVHQRIHTGEKP 40
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 16/30 (53%)
Query: 20 FTCDVCFKEYKYKRGLVRHKKNSCKQKPQN 49
+ CDVC K ++Y L H++ +KP
Sbjct: 13 YKCDVCHKSFRYGSSLTVHQRIHTGEKPSG 42
>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 = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 22/42 (52%), Gaps = 1/42 (2%)
Query: 66 KKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMALKHG 107
K L H+R C P ++C+ C TK S+L KHM HG
Sbjct: 22 KAALRIHERIHCTDRP-FKCNYCSFDTKQPSNLSKHMKKFHG 62
>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 = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ CDVCGK + L H+R G++P
Sbjct: 13 YKCDVCGKEFSQSSHLQTHQRVHTGEKP 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 = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 17/28 (60%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C+ CGK + K L RH+R G++P
Sbjct: 13 YICNECGKSFIQKSHLNRHRRIHTGEKP 40
>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 = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ CDVC K + + L +H+R G++P
Sbjct: 13 YECDVCRKAFSHHASLTQHQRVHSGEKP 40
>pdb|2EQ2|A Chain A, Solution Structure Of The 16th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C+ CGK + L RH+R G++P
Sbjct: 13 YQCNECGKAFSQTSKLARHQRVHTGEKP 40
>pdb|2EME|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
725- 757) Of Human Zinc Finger Protein 473
Length = 46
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ CD CGK + L RH+R G++P
Sbjct: 13 YVCDYCGKAFGLSAELVRHQRIHTGEKP 40
>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 = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C+ CGK + L RH+R G++P
Sbjct: 13 YKCNECGKAFSQTSKLARHQRIHTGEKP 40
>pdb|2ENE|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
592- 624) Of Human Zinc Finger Protein 347
Length = 46
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 18/28 (64%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C+ CGK +++ L RH+R G++P
Sbjct: 13 YKCNECGKVFRHNSYLSRHQRIHTGEKP 40
>pdb|2EPZ|A Chain A, Solution Structure Of The 4th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F C CGK + GL +H+R G++P
Sbjct: 13 FDCIDCGKAFSDHIGLNQHRRIHTGEKP 40
>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 = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 15/28 (53%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F CD C K ++ + L H+ G++P
Sbjct: 13 FRCDTCDKSFRQRSALNSHRMIHTGEKP 40
>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
612- 644) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 14/28 (50%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F C CGK + L H+R G++P
Sbjct: 13 FECAECGKSFSISSQLATHQRIHTGEKP 40
>pdb|5ZNF|A Chain A, Alternating Zinc Fingers In The Human Male Associated
Protein Zfy: 2d Nmr Structure Of An Even Finger And
Implications For "jumping-Linker" Dna Recognition
Length = 30
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 83 YECDQCPHRTKHISSLKKHMALKHGVE 109
Y+C C +R+ S+LK H+ KH E
Sbjct: 3 YQCQYCEYRSADSSNLKTHIKTKHSKE 29
>pdb|1X6E|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Zinc Finger Protein 24
Length = 72
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEPKYECDQCPHRTKHISSLKKHMAL 104
+ C CGK + L +H+R G++P Y+C +C S L H +
Sbjct: 15 YGCVECGKAFSRSSILVQHQRVHTGEKP-YKCLECGKAFSQNSGLINHQRI 64
>pdb|2EOQ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
283- 315) Of Human Zinc Finger Protein 224
Length = 46
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F CD+CGK + + L RH ++P
Sbjct: 13 FKCDICGKSFCGRSRLNRHSMVHTAEKP 40
>pdb|2YTG|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
369- 401) Of Human Zinc Finger Protein 95 Homolog
Length = 46
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F C CGK Y + L +H+R G++P
Sbjct: 13 FKCGECGKSYNQRVHLTQHQRVHTGEKP 40
>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 = 25.4 bits (54), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 15/28 (53%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
F C CGK + K L H++ G++P
Sbjct: 13 FECTECGKAFTRKSTLSMHQKIHTGEKP 40
>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 = 25.4 bits (54), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C+ CGK + K L H+R G++P
Sbjct: 13 YGCNECGKTFSQKSILSAHQRTHTGEKP 40
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 25.0 bits (53), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C CGK + K L +H+R G++P
Sbjct: 13 YRCGECGKAFAQKANLTQHQRIHTGEKP 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 = 25.0 bits (53), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 17/28 (60%)
Query: 54 FSCDVCGKHYKYKKGLGRHKRYECGQEP 81
+ C VCGK + + L +H++ G++P
Sbjct: 13 YICTVCGKAFTDRSNLIKHQKIHTGEKP 40
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
0.324 0.139 0.466
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,575,375
Number of Sequences: 62578
Number of extensions: 136467
Number of successful extensions: 665
Number of sequences better than 100.0: 113
Number of HSP's better than 100.0 without gapping: 87
Number of HSP's successfully gapped in prelim test: 26
Number of HSP's that attempted gapping in prelim test: 408
Number of HSP's gapped (non-prelim): 233
length of query: 111
length of database: 14,973,337
effective HSP length: 75
effective length of query: 36
effective length of database: 10,279,987
effective search space: 370079532
effective search space used: 370079532
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)