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= 024771
(262 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/46 (45%), Positives = 28/46 (60%), Gaps = 2/46 (4%)
Query: 175 IGRKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK-SGRLVPEYRP 219
+GR+C +CGA TP WR G LCNACG+ K +G+ P +P
Sbjct: 4 MGRECVNCGATSTPLWRRDGTG-HYLCNACGLYHKMNGQNRPLIKP 48
>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 = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 26/44 (59%), Gaps = 2/44 (4%)
Query: 177 RKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK-SGRLVPEYRP 219
R+C +CGA TP WR G LCNACG+ K +G+ P RP
Sbjct: 3 RECVNCGATATPLWRRDRTG-HYLCNACGLYHKMNGQNRPLIRP 45
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 177 RKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
R+C +CGA TP WR G LCNACG+ K
Sbjct: 5 RECVNCGATATPLWRRDRTG-HYLCNACGLYHK 36
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 34.3 bits (77), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 17/33 (51%), Positives = 20/33 (60%), Gaps = 1/33 (3%)
Query: 177 RKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
R+C +CGA TP WR G LCNACG+ K
Sbjct: 5 RECVNCGATATPLWRRDRTG-HYLCNACGLYHK 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 = 34.3 bits (77), Expect = 0.080, Method: Composition-based stats.
Identities = 17/34 (50%), Positives = 20/34 (58%), Gaps = 1/34 (2%)
Query: 176 GRKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
R+C +CGA TP WR G LCNACG+ K
Sbjct: 2 ARECVNCGATATPLWRRDRTG-HYLCNACGLYHK 34
>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 = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 176 GRKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
G C +C T WR PMG +CNACG+ +K
Sbjct: 4 GTVCSNCQTSTTTLWRRSPMGDP-VCNACGLYYK 36
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 179 CQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
C +C + TP WR P G + LCNACG+ K
Sbjct: 12 CTNCFTQTTPLWRRNPEG-QPLCNACGLFLK 41
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 179 CQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
C +C + TP WR P G + LCNACG+ K
Sbjct: 12 CTNCFTQTTPVWRRNPEG-QPLCNACGLFLK 41
>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 = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 19/34 (55%), Gaps = 1/34 (2%)
Query: 176 GRKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
G C +C T WR PMG +CNACG+ +K
Sbjct: 4 GTVCSNCQTSTTTLWRRSPMGD-PVCNACGLYYK 36
>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 = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 19/31 (61%), Gaps = 1/31 (3%)
Query: 179 CQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
C +C + TP WR P G + LCNACG+ K
Sbjct: 4 CTNCFTQTTPLWRRNPEG-QPLCNACGLFLK 33
>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 = 27.3 bits (59), Expect = 8.4, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 1/34 (2%)
Query: 176 GRKCQHCGAEKTPQWRAGPMGPKTLCNACGVRFK 209
G C +C T WR G +CNACG+ +K
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 0.135 0.432
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,476,887
Number of Sequences: 62578
Number of extensions: 221487
Number of successful extensions: 298
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 285
Number of HSP's gapped (non-prelim): 13
length of query: 262
length of database: 14,973,337
effective HSP length: 97
effective length of query: 165
effective length of database: 8,903,271
effective search space: 1469039715
effective search space used: 1469039715
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: 50 (23.9 bits)