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= 030237
(181 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 35/56 (62%), Gaps = 5/56 (8%)
Query: 82 GQDDSPSETSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDLGKKME 137
G+ + P T+CT+C +++TP+ RR P G + LCNACGLF G +R L K +
Sbjct: 4 GEQNGP--TTCTNC--FTQTTPLWRRNPEG-QPLCNACGLFLKLHGVVRPLSLKTD 54
>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 = 43.5 bits (101), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 35/56 (62%), Gaps = 5/56 (8%)
Query: 82 GQDDSPSETSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDLGKKME 137
G+ + P T+CT+C +++TP+ RR P G + LCNACGLF G +R L K +
Sbjct: 4 GEQNGP--TTCTNC--FTQTTPVWRRNPEG-QPLCNACGLFLKLHGVVRPLSLKTD 54
>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 = 42.0 bits (97), Expect = 2e-04, Method: Composition-based stats.
Identities = 21/43 (48%), Positives = 29/43 (67%), Gaps = 3/43 (6%)
Query: 90 TSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDL 132
T+CT+C +++TP+ RR P G + LCNACGLF G +R L
Sbjct: 2 TTCTNC--FTQTTPLWRRNPEG-QPLCNACGLFLKLHGVVRPL 41
>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 = 32.3 bits (72), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 92 CTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDLGK 134
C +CG +S TP+ RR +G LCNACGL+ G R L K
Sbjct: 8 CVNCGATS--TPLWRRDGTG-HYLCNACGLYHKMNGQNRPLIK 47
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 90 TSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDLGKKME 137
TSC +C + +T + RR +G +CNACGL++ R L K E
Sbjct: 60 TSCANC--QTTTTTLWRRNANGD-PVCNACGLYYKLHNINRPLTMKKE 104
>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 = 31.6 bits (70), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 92 CTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDL 132
C +CG ++ TP+ RR +G LCNACGL+ G R L
Sbjct: 5 CVNCGATA--TPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 42
>pdb|1GNF|A Chain A, Solution Structure Of The N-Terminal Zinc Finger Of Murine
Gata-1, Nmr, 25 Structures
Length = 46
Score = 31.6 bits (70), Expect = 0.26, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 92 CTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDL 132
C +CG + +TP+ RR +G LCNACGL+ G R L
Sbjct: 7 CVNCG--ATATPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 44
>pdb|1Y0J|A Chain A, Zinc Fingers As Protein Recognition Motifs: Structural
Basis For The Gata-1FRIEND OF GATA INTERACTION
Length = 46
Score = 31.2 bits (69), Expect = 0.31, Method: Composition-based stats.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 92 CTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDL 132
C +CG + +TP+ RR +G LCNACGL+ G R L
Sbjct: 7 CVNCG--ATATPLWRRDRTG-HYLCNACGLYHKMNGQNRPL 44
>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 = 30.0 bits (66), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 90 TSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFW 123
T C++C S+ T + RR P G +CNACGL++
Sbjct: 5 TVCSNCQTST--TTLWRRSPMGD-PVCNACGLYY 35
>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 = 29.6 bits (65), Expect = 0.87, Method: Composition-based stats.
Identities = 16/36 (44%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 92 CTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKG 127
C +CG + +TP+ RR +G LCNACGL+ G
Sbjct: 5 CVNCG--ATATPLWRRDRTG-HYLCNACGLYHKMNG 37
>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 = 29.6 bits (65), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 90 TSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFWANKGALRDLGKKME 137
TSC +C + +T + RR +G +CNACGL++ R L K E
Sbjct: 8 TSCANC--QTTTTTLWRRNANGD-PVCNACGLYYKLHNINRPLTMKKE 52
>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 = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 90 TSCTHCGISSKSTPMMRRGPSGPRSLCNACGLFW 123
T C++C S+ T + RR P G +CNACGL++
Sbjct: 5 TVCSNCQTST--TTLWRRSPMGD-PVCNACGLYY 35
>pdb|3DWL|C Chain C, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
pdb|3DWL|H Chain H, Crystal Structure Of Fission Yeast Arp2/3 Complex Lacking
The Arp2 Subunit
Length = 377
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 32/91 (35%), Gaps = 12/91 (13%)
Query: 86 SPSETSCTHCGISSKSTPMMRRGPSGP-RSLCNAC-------GLFWANKGALRDLGKKME 137
SPS + + G S T P P R+L L WAN+ A+ G
Sbjct: 214 SPSGNALAYAGHDSSVTIAYPSAPEQPPRALITVKLSQLPLRSLLWANESAIVAAGYNYS 273
Query: 138 DQPLTPAEQGEGEVNDSDCGTA----AHTDN 164
L E G D D GT+ HT N
Sbjct: 274 PILLQGNESGWAHTRDLDAGTSKTSFTHTGN 304
>pdb|2JPI|A Chain A, Chemical Shift Assignments Of Pa4090 From Pseudomonas
Aeruginosa
Length = 118
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 2/45 (4%)
Query: 133 GKKMEDQPLTPAEQGEGEVNDSDCGTAAHTDNELVSFSNDDDSAL 177
G K E + LTP E+G + DS+C AH D+ L+ ++ D+ +L
Sbjct: 47 GHKFEVE-LTP-ERGFIDFGDSNCELLAHPDHVLMILNSPDEDSL 89
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
0.314 0.129 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,550,812
Number of Sequences: 62578
Number of extensions: 212914
Number of successful extensions: 299
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 291
Number of HSP's gapped (non-prelim): 17
length of query: 181
length of database: 14,973,337
effective HSP length: 93
effective length of query: 88
effective length of database: 9,153,583
effective search space: 805515304
effective search space used: 805515304
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 48 (23.1 bits)