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= 020996
(318 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|7GAT|A Chain A, Solution Nmr Structure Of The L22v Mutant Dna Binding
Domain Of Area Complexed To A 13 Bp Dna Containing A
Tgata Site, 34 Structures
pdb|6GAT|A Chain A, Solution Nmr Structure Of The L22v Mutant Dna Binding
Domain Of Area Complexed To A 13 Bp Dna Containing A
Tgata Site, Regularized Mean Structure
Length = 66
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 244 CSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
C++C +Q TP WR P G + LCNACG+ K
Sbjct: 12 CTNCFTQTTPVWRRNPEG-QPLCNACGLFLK 41
>pdb|4GAT|A Chain A, Solution Nmr Structure Of The Wild Type Dna Binding Domain
Of Area Complexed To A 13bp Dna Containing A Cgata Site,
Regularized Mean Structure
pdb|5GAT|A Chain A, Solution Nmr Structure Of The Wild Type Dna Binding Domain
Of Area Complexed To A 13bp Dna Containing A Cgata Site,
35 Structures
Length = 66
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 244 CSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
C++C +Q TP WR P G + LCNACG+ K
Sbjct: 12 CTNCFTQTTPLWRRNPEG-QPLCNACGLFLK 41
>pdb|2VUS|I Chain I, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|J Chain J, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|K Chain K, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|L Chain L, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|M Chain M, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|N Chain N, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|O Chain O, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUS|P Chain P, Crystal Structure Of Unliganded Nmra-Area Zinc Finger
Complex
pdb|2VUT|I Chain I, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|J Chain J, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|K Chain K, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|L Chain L, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|M Chain M, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|N Chain N, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|O Chain O, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUT|P Chain P, Crystal Structure Of Nad-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|I Chain I, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|J Chain J, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|K Chain K, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|L Chain L, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|M Chain M, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|N Chain N, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|O Chain O, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
pdb|2VUU|P Chain P, Crystal Structure Of Nadp-Bound Nmra-Area Zinc Finger
Complex
Length = 43
Score = 35.8 bits (81), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 16/31 (51%), Positives = 21/31 (67%), Gaps = 1/31 (3%)
Query: 244 CSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
C++C +Q TP WR P G + LCNACG+ K
Sbjct: 4 CTNCFTQTTPLWRRNPEG-QPLCNACGLFLK 33
>pdb|1GAT|A Chain A, Solution Structure Of The Specific Dna Complex Of The Zinc
Containing Dna Binding Domain Of The Erythroid
Transcription Factor Gata-1 By Multidimensional Nmr
pdb|1GAU|A Chain A, Solution Structure Of The Specific Dna Complex Of The Zinc
Containing Dna Binding Domain Of The Erythroid
Transcription Factor Gata-1 By Multidimensional Nmr
Length = 60
Score = 34.7 bits (78), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
G CS+C + T WR P+G +CNACG+ YK
Sbjct: 4 GTVCSNCQTSTTTLWRRSPMGDP-VCNACGLYYK 36
>pdb|3GAT|A Chain A, Solution Nmr Structure Of The C-Terminal Domain Of Chicken
Gata-1 Bound To Dna, 34 Structures
pdb|2GAT|A Chain A, Solution Structure Of The C-Terminal Domain Of Chicken
Gata- 1 Bound To Dna, Nmr, Regularized Mean Structure
Length = 66
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
G CS+C + T WR P+G +CNACG+ YK
Sbjct: 4 GTVCSNCQTSTTTLWRRSPMGD-PVCNACGLYYK 36
>pdb|2L6Y|A Chain A, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid
pdb|2L6Z|A Chain A, Haddock Model Of Gata1nf:lmo2lim2-Ldb1lid With Fog
Length = 39
Score = 32.7 bits (73), Expect = 0.28, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
R C +C + TP WR G LCNACG+ +K
Sbjct: 2 ARECVNCGATATPLWRRDRTG-HYLCNACGLYHK 34
>pdb|4HC7|A Chain A, Crystal Structure Of The Full Dna Binding Domain Of
Gata3-Complex 2
pdb|4HC7|B Chain B, Crystal Structure Of The Full Dna Binding Domain Of
Gata3-Complex 2
pdb|4HC9|A Chain A, Dna Binding By Gata Transcription Factor-Complex 3
pdb|4HCA|A Chain A, Dna Binding By Gata Transcription Factor-Complex 1
Length = 115
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK-SGRLLPEYRPAK 286
GR C +C + TP WR G LCNACG+ +K +G+ P +P +
Sbjct: 5 GRECVNCGATSTPLWRRDGTG-HYLCNACGLYHKMNGQNRPLIKPKR 50
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
G C++C + T WR G +CNACG+ YK
Sbjct: 59 GTSCANCQTTTTTLWRRNANGDP-VCNACGLYYK 91
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 32.3 bits (72), Expect = 0.35, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
R C +C + TP WR G LCNACG+ +K
Sbjct: 4 ARECVNCGATATPLWRRDRTG-HYLCNACGLYHK 36
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 32.3 bits (72), Expect = 0.38, Method: Composition-based stats.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
R C +C + TP WR G LCNACG+ +K
Sbjct: 4 ARECVNCGATATPLWRRDRTG-HYLCNACGLYHK 36
>pdb|3VD6|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P21 Crystal Form
pdb|3VEK|C Chain C, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
pdb|3VEK|F Chain F, Both Zn Fingers Of Gata1 Bound To Palindromic Dna
Recognition Site, P1 Crystal Form
Length = 119
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 26/46 (56%), Gaps = 2/46 (4%)
Query: 242 RRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK-SGRLLPEYRPAK 286
R C +C + TP WR G LCNACG+ +K +G+ P RP K
Sbjct: 3 RECVNCGATATPLWRRDRTG-HYLCNACGLYHKMNGQNRPLIRPKK 47
>pdb|3DFV|D Chain D, Adjacent Gata Dna Binding
pdb|3DFV|C Chain C, Adjacent Gata Dna Binding
pdb|3DFX|A Chain A, Opposite Gata Dna Binding
pdb|3DFX|B Chain B, Opposite Gata Dna Binding
Length = 63
Score = 30.8 bits (68), Expect = 0.98, Method: Composition-based stats.
Identities = 14/34 (41%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 241 GRRCSHCLSQRTPQWRAGPLGPKTLCNACGVRYK 274
G C++C + T WR G +CNACG+ YK
Sbjct: 7 GTSCANCQTTTTTLWRRNANG-DPVCNACGLYYK 39
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
0.319 0.133 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,309,512
Number of Sequences: 62578
Number of extensions: 124510
Number of successful extensions: 206
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 193
Number of HSP's gapped (non-prelim): 13
length of query: 318
length of database: 14,973,337
effective HSP length: 99
effective length of query: 219
effective length of database: 8,778,115
effective search space: 1922407185
effective search space used: 1922407185
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)