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= 040794
(375 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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 56/141 (39%), Gaps = 31/141 (21%)
Query: 207 ILIGPTQFSCPVCCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPG 266
+ G ++CP C K+F+R +++ H H TG C P
Sbjct: 15 LEPGEKPYACPECGKSFSRSDHLAEHQRTH----------------TGEKPYKC----PE 54
Query: 267 CRNNIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKN-CGKLWY 325
C K D + L H + G KP+ C +CGK+F+ R + R H++ G+ Y
Sbjct: 55 C--------GKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEKPY 106
Query: 326 CI--CGSDFKHKRSLKDHIKA 344
CG F L+ H +
Sbjct: 107 ACPECGKSFSQLAHLRAHQRT 127
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 60/149 (40%), Gaps = 23/149 (15%)
Query: 209 IGPTQFSCPVCCKTFNRYNNMQMHMWGH-GSQYRKGPE---------SLRGTQPTGMLRL 258
G + CP C K+F+ ++ H H G + K PE +LR Q T
Sbjct: 45 TGEKPYKCPECGKSFSDKKDLTRHQRTHTGEKPYKCPECGKSFSQRANLRAHQRTHTGEK 104
Query: 259 PCYCCAPGCRNNIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
P C P C K L+ H + G KP+ C +CGK+F+ + TH++
Sbjct: 105 PYAC--PEC--------GKSFSQLAHLRAHQRTHTGEKPYKCPECGKSFSREDNLHTHQR 154
Query: 319 --NCGKLWYCI-CGSDFKHKRSLKDHIKA 344
K + C CG F + +L H +
Sbjct: 155 THTGEKPYKCPECGKSFSRRDALNVHQRT 183
>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 = 35.0 bits (79), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 40/106 (37%), Gaps = 28/106 (26%)
Query: 214 FSCPVCCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPGCRNNIDH 273
+ CP C K+F++ +N+Q H H TG C P C
Sbjct: 5 YKCPECGKSFSQSSNLQKHQRTH----------------TGEKPYKC----PEC------ 38
Query: 274 PRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKN 319
K LQ H + G KP+ C +CGK+F+ H++
Sbjct: 39 --GKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRHQRT 82
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 31/66 (46%), Gaps = 3/66 (4%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK--NCGKLWYCI-CGSDFKHKRSLKDH 341
LQ H + G KP+ C +CGK+F+ D + H++ K + C CG F L H
Sbjct: 20 LQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRTHTGEKPYKCPECGKSFSRSDHLSRH 79
Query: 342 IKAFGN 347
+ N
Sbjct: 80 QRTHQN 85
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 26/52 (50%), Gaps = 3/52 (5%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK--NCGKLWYCI-CGSDFKHKRSLKDHIKA 344
KP+ C +CGK+F+ + + H++ K + C CG F L+ H +
Sbjct: 3 KPYKCPECGKSFSQSSNLQKHQRTHTGEKPYKCPECGKSFSQSSDLQKHQRT 54
>pdb|2YTA|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 3 In
Zinc Finger Protein 32
Length = 41
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 GIKPFMCRKCGKAFAVRGDWRTHEK 318
G KP+ C++CGK+F+ RG HE+
Sbjct: 7 GEKPYQCKECGKSFSQRGSLAVHER 31
>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 = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 35/64 (54%), Gaps = 6/64 (9%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHE-KNC----GKLWYC-ICGSDFKHKRSL 338
L+ H ++ G KPF C KCGK + + + HE +NC +++ C +C F+ + L
Sbjct: 23 LKVHNRKHTGEKPFECPKCGKCYFRKENLLEHEARNCMNRSEQVFTCSVCQETFRRRMEL 82
Query: 339 KDHI 342
+ H+
Sbjct: 83 RLHM 86
>pdb|2YT9|A Chain A, Solution Structure Of C2h2 Type Zinc Finger Domain 345 In
Zinc Finger Protein 278
Length = 95
Score = 33.1 bits (74), Expect = 0.26, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 34/81 (41%), Gaps = 5/81 (6%)
Query: 276 AKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDW----RTHEKNCGKLWYC-ICGS 330
K +D L H G KP+ C CG F + R+H+ + GK + C CG
Sbjct: 14 GKIFRDVYHLNRHKLSHSGEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKPYICQSCGK 73
Query: 331 DFKHKRSLKDHIKAFGNGHAA 351
F L HIK +G ++
Sbjct: 74 GFSRPDHLNGHIKQVHSGPSS 94
>pdb|2EQ3|A Chain A, Solution Structure Of The 17th C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 347
Length = 46
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 12/22 (54%), Positives = 16/22 (72%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHE 317
KP+ C +CGKAF+VR TH+
Sbjct: 11 KPYECNQCGKAFSVRSSLTTHQ 32
>pdb|2EPC|A Chain A, Solution Structure Of Zinc Finger Domain 7 In Zinc Finger
Protein 32
Length = 42
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 17/24 (70%)
Query: 297 PFMCRKCGKAFAVRGDWRTHEKNC 320
P++C +CGK+F RG H+++C
Sbjct: 11 PYLCGQCGKSFTQRGSLAVHQRSC 34
>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 = 32.7 bits (73), Expect = 0.33, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 17/23 (73%)
Query: 295 IKPFMCRKCGKAFAVRGDWRTHE 317
+KP+MC +CGKAF+V TH+
Sbjct: 10 VKPYMCNECGKAFSVYSSLTTHQ 32
>pdb|2YTJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (region
771- 803) Of Human Zinc Finger Protein 484
Length = 46
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 17/23 (73%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
KP++C +CGKAF +R + H+K
Sbjct: 11 KPYICAECGKAFTIRSNLIKHQK 33
>pdb|1X6H|A Chain A, Solution Structures Of The C2h2 Type Zinc Finger Domain Of
Human Transcriptional Repressor Ctcf
Length = 86
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 277 KPLKDFRTLQTHYKRKHGIK----PFMCRKCGKAFAVRGDWRTHEKNC 320
K + + L H+KR H F+C KCGK F R H NC
Sbjct: 23 KTFRQKQLLDMHFKRYHDPNFVPAAFVCSKCGKTFTRRNTMARHADNC 70
>pdb|2EPQ|A Chain A, Solution Structure Of The Third Zinc Finger Domain Of Zinc
Finger Protein 278
Length = 45
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 210 GPTQFSCPVCCKTFNRYNNMQMHMWGH-GSQYRKGPES 246
G +SCPVC F R + M H+ H GS + GP S
Sbjct: 7 GEKPYSCPVCGLRFKRKDRMSYHVRSHDGSVGKSGPSS 44
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKN 319
L+ H +R G+KPF C+ C + F+ +TH +
Sbjct: 54 LKRHQRRHTGVKPFQCKTCQRKFSRSDHLKTHTRT 88
>pdb|2KMK|A Chain A, Gfi-1 Zinc Fingers 3-5 Complexed With Dna
Length = 82
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 39/106 (36%), Gaps = 28/106 (26%)
Query: 214 FSCPVCCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPGCRNNIDH 273
F C +C K+F R + + H+ H T+P PC C D
Sbjct: 2 FDCKICGKSFKRSSTLSTHLLIHSD-----------TRP-----YPCQYCGKRFHQKSD- 44
Query: 274 PRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKN 319
+K + T G KP C+ CGKAF+ + TH +
Sbjct: 45 -----MKKHTFIHT------GEKPHKCQVCGKAFSQSSNLITHSRK 79
>pdb|2EQW|A Chain A, Solution Structure Of The 6th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 484
Length = 42
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 18/25 (72%)
Query: 294 GIKPFMCRKCGKAFAVRGDWRTHEK 318
G KP++C +CGKAF + + THE+
Sbjct: 7 GEKPYVCTECGKAFIRKSHFITHER 31
>pdb|2EN0|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
385- 413) Of Human Zinc Finger Protein 268
Length = 42
Score = 30.4 bits (67), Expect = 1.5, Method: Composition-based stats.
Identities = 11/25 (44%), Positives = 17/25 (68%)
Query: 294 GIKPFMCRKCGKAFAVRGDWRTHEK 318
G KP++C +CGKAF ++ HE+
Sbjct: 7 GQKPYVCNECGKAFGLKSQLIIHER 31
>pdb|2EPU|A Chain A, Solution Structure Of The Secound C2h2 Type Zinc Finger
Domain Of Zinc Finger Protein 32
Length = 45
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
KPF C CGK+F +G+ TH++
Sbjct: 11 KPFECTHCGKSFRAKGNLVTHQR 33
>pdb|2EMJ|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
612- 644) Of Human Zinc Finger Protein 28 Homolog
Length = 46
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
KPF C +CGK+F++ TH++
Sbjct: 11 KPFECAECGKSFSISSQLATHQR 33
>pdb|2EP3|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
631- 663) Of Human Zinc Finger Protein 484
Length = 46
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 16/23 (69%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
KP+ C +CGKAF R + TH+K
Sbjct: 11 KPYRCAECGKAFTDRSNLFTHQK 33
>pdb|2EN4|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
284- 316) Of Human Zinc Finger Protein 347
Length = 46
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 15/22 (68%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHE 317
KP+ C +CGKAF R + TH+
Sbjct: 11 KPYKCYECGKAFRTRSNLTTHQ 32
>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 = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 41/109 (37%), Gaps = 34/109 (31%)
Query: 214 FSCPV--CCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPGCRN-- 269
++CPV C + F+R + + H+ H TG C C RN
Sbjct: 5 YACPVESCDRRFSRSDELTRHIRIH----------------TGQKPFQCRICM---RNFS 45
Query: 270 NIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
DH L TH + G KPF C CG+ FA + + H K
Sbjct: 46 RSDH-----------LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 41/109 (37%), Gaps = 34/109 (31%)
Query: 214 FSCPV--CCKTFNRYNNMQMHMWGHGSQYRKGPESLRGTQPTGMLRLPCYCCAPGCRN-- 269
++CPV C + F+R + + H+ H TG C C RN
Sbjct: 4 YACPVESCDRRFSRSDELTRHIRIH----------------TGQKPFQCRICM---RNFS 44
Query: 270 NIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
DH L TH + G KPF C CG+ FA + + H K
Sbjct: 45 RSDH-----------LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 82
>pdb|1A1H|A Chain A, Qgsr (Zif268 Variant) Zinc Finger-Dna Complex (Gcac Site)
Length = 90
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>pdb|2WBU|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 90
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFA 308
L HY++ G +PF C+KC +AF+
Sbjct: 54 LTRHYRKHTGHRPFQCQKCDRAFS 77
>pdb|1ZAA|C Chain C, Zinc Finger-Dna Recognition: Crystal Structure Of A
Zif268- Dna Complex At 2.1 Angstroms
Length = 87
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK 318
L TH + G KPF C CG+ FA + + H K
Sbjct: 50 LTTHIRTHTGEKPFACDICGRKFARSDERKRHTK 83
>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 = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%), Gaps = 1/35 (2%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKN 319
L TH + G KPF C CG+ FA R D R ++
Sbjct: 19 LTTHIRTHTGEKPFACDICGRKFA-RSDERKRHRD 52
>pdb|2WBS|A Chain A, Crystal Structure Of The Zinc Finger Domain Of Klf4 Bound
To Its Target Dna
Length = 89
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFA 308
L HY++ G +PF C+KC +AF+
Sbjct: 53 LTRHYRKHTGHRPFQCQKCDRAFS 76
>pdb|2LCE|A Chain A, Chemical Shift Assignment Of Hr4436b From Homo Sapiens,
Northeast Structural Genomics Consortium
Length = 74
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK--NCGKLWYC-ICGSDFKHKRSLKDHIK 343
KP+ C +C +F +G+ +H+ K + C ICG+ F +LK H +
Sbjct: 16 KPYKCDRCQASFRYKGNLASHKTVHTGEKPYRCNICGAQFNRPANLKTHTR 66
>pdb|2GLI|A Chain A, Five-Finger GliDNA COMPLEX
Length = 155
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 36/95 (37%), Gaps = 16/95 (16%)
Query: 259 PCYCCAPGCRNNIDHPRAKPLKDFRTLQTHYKRKHGIKPFMCRK--CGKAFAVRGDWRTH 316
P C GCR K L+TH + G KP+MC C KAF+ D H
Sbjct: 67 PHKCTFEGCR--------KSYSRLENLKTHLRSHTGEKPYMCEHEGCSKAFSNASDRAKH 118
Query: 317 EKNC---GKLWYCI---CGSDFKHKRSLKDHIKAF 345
+ K + C C + SL+ H+K
Sbjct: 119 QNRTHSNEKPYVCKLPGCTKRYTDPSSLRKHVKTV 153
>pdb|2CSH|A Chain A, Solution Structure Of Tandem Repeat Of The Zf-C2h2 Domains
Of Human Zinc Finger Protein 297b
Length = 110
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 21/49 (42%)
Query: 276 AKPLKDFRTLQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEKNCGKLW 324
K K L H K GIKP+ C C K F R + H +C K +
Sbjct: 44 GKKFKMKHHLVGHMKIHTGIKPYECNICAKRFMWRDSFHRHVTSCTKSY 92
>pdb|2EM7|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
339- 371) Of Human Zinc Finger Protein 224
Length = 46
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 296 KPFMCRKCGKAFAVRGDWRTH 316
KP+ C +CGK F R D TH
Sbjct: 11 KPYKCEECGKGFICRRDLYTH 31
>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 = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 3/62 (4%)
Query: 285 LQTHYKRKHGIKPFMCRKCGKAFAVRGDWRTHEK--NCGKLWYC-ICGSDFKHKRSLKDH 341
L TH + G KPF CR C + F+ + H + K + C ICG F + H
Sbjct: 22 LDTHIRIHTGQKPFQCRICMRNFSQQASLNAHIRTHTGEKPFACDICGRKFATLHTRTRH 81
Query: 342 IK 343
K
Sbjct: 82 TK 83
>pdb|2EOL|A Chain A, Solution Structure Of The C2h2 Type Zinc Finger (Region
581- 609) Of Human Zinc Finger Protein 268
Length = 42
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 294 GIKPFMCRKCGKAFAVRGDWRTHEKN 319
G KP+ C CGKAF ++ H++
Sbjct: 7 GEKPYECTDCGKAFGLKSQLIIHQRT 32
>pdb|2YRJ|A Chain A, Solution Structure Of The C2h2-Type Zinc Finger Domain
(781- 813) From Zinc Finger Protein 473
Length = 46
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 16/23 (69%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
KP+ C +CGKAFA + + H++
Sbjct: 11 KPYRCGECGKAFAQKANLTQHQR 33
>pdb|2EQ1|A Chain A, Solution Structure Of The 9th C2h2 Type Zinc Finger Domain
Of Zinc Finger Protein 347
Length = 46
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHE 317
KP+ C +CGKAF + TH+
Sbjct: 11 KPYKCNECGKAFRAHSNLTTHQ 32
>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 = 27.7 bits (60), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 296 KPFMCRKCGKAFAVRGDWRTHEK 318
+P++C CGKAF R + H+K
Sbjct: 11 RPYICTVCGKAFTDRSNLIKHQK 33
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
0.321 0.135 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,204,934
Number of Sequences: 62578
Number of extensions: 357333
Number of successful extensions: 1494
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 66
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1311
Number of HSP's gapped (non-prelim): 173
length of query: 375
length of database: 14,973,337
effective HSP length: 100
effective length of query: 275
effective length of database: 8,715,537
effective search space: 2396772675
effective search space used: 2396772675
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)